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Sample records for bac-based physical map

  1. Advances in BAC-Based Physical Mapping and Map Integration Strategies in Plants

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    Ruvini Ariyadasa

    2012-01-01

    Full Text Available In the advent of next-generation sequencing (NGS platforms, map-based sequencing strategy has been recently suppressed being too expensive and laborious. The detailed studies on NGS drafts alone indicated these assemblies remain far from gold standard reference quality, especially when applied on complex genomes. In this context the conventional BAC-based physical mapping has been identified as an important intermediate layer in current hybrid sequencing strategy. BAC-based physical map construction and its integration with high-density genetic maps have benefited from NGS and high-throughput array platforms. This paper addresses the current advancements of BAC-based physical mapping and high-throughput map integration strategies to obtain densely anchored well-ordered physical maps. The resulted maps are of immediate utility while providing a template to harness the maximum benefits of the current NGS platforms.

  2. Genomic tools development for Aquilegia: construction of a BAC-based physical map

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    Hodges Scott A

    2010-11-01

    Full Text Available Abstract Background The genus Aquilegia, consisting of approximately 70 taxa, is a member of the basal eudicot lineage, Ranuculales, which is evolutionarily intermediate between monocots and core eudicots, and represents a relatively unstudied clade in the angiosperm phylogenetic tree that bridges the gap between these two major plant groups. Aquilegia species are closely related and their distribution covers highly diverse habitats. These provide rich resources to better understand the genetic basis of adaptation to different pollinators and habitats that in turn leads to rapid speciation. To gain insights into the genome structure and facilitate gene identification, comparative genomics and whole-genome shotgun sequencing assembly, BAC-based genomics resources are of crucial importance. Results BAC-based genomic resources, including two BAC libraries, a physical map with anchored markers and BAC end sequences, were established from A. formosa. The physical map was composed of a total of 50,155 BAC clones in 832 contigs and 3939 singletons, covering 21X genome equivalents. These contigs spanned a physical length of 689.8 Mb (~2.3X of the genome suggesting the complex heterozygosity of the genome. A set of 197 markers was developed from ESTs induced by drought-stress, or involved in anthocyanin biosynthesis or floral development, and was integrated into the physical map. Among these were 87 genetically mapped markers that anchored 54 contigs, spanning 76.4 Mb (25.5% across the genome. Analysis of a selection of 12,086 BAC end sequences (BESs from the minimal tiling path (MTP allowed a preview of the Aquilegia genome organization, including identification of transposable elements, simple sequence repeats and gene content. Common repetitive elements previously reported in both monocots and core eudicots were identified in Aquilegia suggesting the value of this genome in connecting the two major plant clades. Comparison with sequenced plant genomes

  3. A BAC-based physical map of Zhikong scallop (Chlamys farreri Jones et Preston.

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    Xiaojun Zhang

    Full Text Available Zhikong scallop (Chlamys farreri is one of the most economically important aquaculture species in China. Physical maps are crucial tools for genome sequencing, gene mapping and cloning, genetic improvement and selective breeding. In this study, we have developed a genome-wide, BAC-based physical map for the species. A total of 81,408 clones from two BAC libraries of the scallop were fingerprinted using an ABI 3130xl Genetic Analyzer and a fingerprinting kit developed in our laboratory. After data processing, 63,641 (∼5.8× genome coverage fingerprints were validated and used in the physical map assembly. A total of 3,696 contigs were assembled for the physical map. Each contig contained an average of 10.0 clones, with an average physical size of 490 kb. The combined total physical size of all contigs was 1.81 Gb, equivalent to approximately 1.5 fold of the scallop haploid genome. A total of 10,587 BAC end sequences (BESs and 167 markers were integrated into the physical map. We evaluated the physical map by overgo hybridization, BAC-FISH (fluorescence in situ hybridization, contig BAC pool screening and source BAC library screening. The results have provided evidence of the high reliability of the contig physical map. This is the first physical map in mollusc; therefore, it provides an important platform for advanced research of genomics and genetics, and mapping of genes and QTL of economical importance, thus facilitating the genetic improvement and selective breeding of the scallop and other marine molluscs.

  4. A dense genetic linkage map for common carp and its integration with a BAC-based physical map.

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    Lan Zhao

    Full Text Available BACKGROUND: Common carp (Cyprinus carpio is one of the most important aquaculture species with an annual global production of 3.4 million metric tons. It is also an important ornamental species as well as an important model species for aquaculture research. To improve the economically important traits of this fish, a number of genomic resources and genetic tools have been developed, including several genetic maps and a bacterial artificial chromosome (BAC-based physical map. However, integrated genetic and physical maps are not available to study quantitative trait loci (QTL and assist with fine mapping, positional cloning and whole genome sequencing and assembly. The objective of this study was to integrate the currently available BAC-based physical and genetic maps. RESULTS: The genetic map was updated with 592 novel markers, including 312 BAC-anchored microsatellites and 130 SNP markers, and contained 1,209 genetic markers on 50 linkage groups, spanning 3,565.9 cM in the common carp genome. An integrated genetic and physical map of the common carp genome was then constructed, which was composed of 463 physical map contigs and 88 single BACs. Combined lengths of the contigs and single BACs covered a physical length of 498.75 Mb, or around 30% of the common carp genome. Comparative analysis between common carp and zebrafish genomes was performed based on the integrated map, providing more insights into the common carp specific whole genome duplication and segmental rearrangements in the genome. CONCLUSION: We integrated a BAC-based physical map to a genetic linkage map of common carp by anchoring BAC-associated genetic markers. The density of the genetic linkage map was significantly increased. The integrated map provides a tool for both genetic and genomic studies of common carp, which will help us to understand the genomic architecture of common carp and facilitate fine mapping and positional cloning of economically important traits for

  5. A BAC-based physical map of the Drosophila buzzatii genome

    Energy Technology Data Exchange (ETDEWEB)

    Gonzalez, Josefa; Nefedov, Michael; Bosdet, Ian; Casals, Ferran; Calvete, Oriol; Delprat, Alejandra; Shin, Heesun; Chiu, Readman; Mathewson, Carrie; Wye, Natasja; Hoskins, Roger A.; Schein, JacquelineE.; de Jong, Pieter; Ruiz, Alfredo

    2005-03-18

    Large-insert genomic libraries facilitate cloning of large genomic regions, allow the construction of clone-based physical maps and provide useful resources for sequencing entire genomes. Drosophilabuzzatii is a representative species of the repleta group in the Drosophila subgenus, which is being widely used as a model in studies of genome evolution, ecological adaptation and speciation. We constructed a Bacterial Artificial Chromosome (BAC) genomic library of D. buzzatii using the shuttle vector pTARBAC2.1. The library comprises 18,353 clones with an average insert size of 152 kb and a {approx}18X expected representation of the D. buzzatii euchromatic genome. We screened the entire library with six euchromatic gene probes and estimated the actual genome representation to be {approx}23X. In addition, we fingerprinted by restriction digestion and agarose gel electrophoresis a sample of 9,555 clones, and assembled them using Finger Printed Contigs (FPC) software and manual editing into 345 contigs (mean of 26 clones per contig) and 670singletons. Finally, we anchored 181 large contigs (containing 7,788clones) to the D. buzzatii salivary gland polytene chromosomes by in situ hybridization of 427 representative clones. The BAC library and a database with all the information regarding the high coverage BAC-based physical map described in this paper are available to the research community.

  6. A first generation BAC-based physical map of the Asian seabass (Lates calcarifer.

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    Jun Hong Xia

    Full Text Available BACKGROUND: The Asian seabass (Lates calcarifer is an important marine foodfish species in Southeast Asia and Australia. Genetic improvement of this species has been achieved to some extent through selective breeding programs since 1990s. Several genomic tools such as DNA markers, a linkage map, cDNA and BAC libraries have been developed to assist selective breeding. A physical map is still lacking, although it is essential for positional cloning of genes located in quantitative trait loci (QTL and assembly of whole genome sequences. METHODOLOGY/PRINCIPAL FINDINGS: A genome-wide physical map of the Asian seabass was constructed by restriction fingerprinting of 38,208 BAC clones with SNaPshot HICF FPC technique. A total of 30,454 were assembled into 2,865 contigs. The physical length of the assembled contigs summed up to 665 Mb. Analyses of some contigs using different methods demonstrated the reliability of the assembly. CONCLUSIONS/SIGNIFICANCE: The present physical map is the first physical map for Asian seabass. This physical map will facilitate the fine mapping of QTL for economically important traits and the positional cloning of genes located in QTL. It will also be useful for the whole genome sequencing and assembly. Detailed information about BAC-contigs and BAC clones are available upon request.

  7. The first generation of a BAC-based physical map of Brassica rapa

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    Lee Soo

    2008-06-01

    Full Text Available Abstract Background The genus Brassica includes the most extensively cultivated vegetable crops worldwide. Investigation of the Brassica genome presents excellent challenges to study plant genome evolution and divergence of gene function associated with polyploidy and genome hybridization. A physical map of the B. rapa genome is a fundamental tool for analysis of Brassica "A" genome structure. Integration of a physical map with an existing genetic map by linking genetic markers and BAC clones in the sequencing pipeline provides a crucial resource for the ongoing genome sequencing effort and assembly of whole genome sequences. Results A genome-wide physical map of the B. rapa genome was constructed by the capillary electrophoresis-based fingerprinting of 67,468 Bacterial Artificial Chromosome (BAC clones using the five restriction enzyme SNaPshot technique. The clones were assembled into contigs by means of FPC v8.5.3. After contig validation and manual editing, the resulting contig assembly consists of 1,428 contigs and is estimated to span 717 Mb in physical length. This map provides 242 anchored contigs on 10 linkage groups to be served as seed points from which to continue bidirectional chromosome extension for genome sequencing. Conclusion The map reported here is the first physical map for Brassica "A" genome based on the High Information Content Fingerprinting (HICF technique. This physical map will serve as a fundamental genomic resource for accelerating genome sequencing, assembly of BAC sequences, and comparative genomics between Brassica genomes. The current build of the B. rapa physical map is available at the B. rapa Genome Project website for the user community.

  8. A First Generation Bac-Based Physical Map of the Channel Catfish Genome

    Science.gov (United States)

    Background: Channel catfish, Ictalurus punctatus, is the leading species in North American aquaculture. Genetic improvement of catfish is performed through selective breeding, and genomic tools will help improve selection efficiency. A physical map is needed to integrate the genetic map with the kar...

  9. A first generation BAC-based physical map of the channel catfish genome

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    Waldbieser Geoffrey C

    2007-02-01

    Full Text Available Abstract Background Channel catfish, Ictalurus punctatus, is the leading species in North American aquaculture. Genetic improvement of catfish is performed through selective breeding, and genomic tools will help improve selection efficiency. A physical map is needed to integrate the genetic map with the karyotype and to support fine mapping of phenotypic trait alleles such as Quantitative Trait Loci (QTL and the effective positional cloning of genes. Results A genome-wide physical map of the channel catfish was constructed by High-Information-Content Fingerprinting (HICF of 46,548 Bacterial Artificial Chromosomes (BAC clones using the SNaPshot technique. The clones were assembled into contigs with FPC software. The resulting assembly contained 1,782 contigs and covered an estimated physical length of 0.93 Gb. The validity of the assembly was demonstrated by 1 anchoring 19 of the largest contigs to the microsatellite linkage map 2 comparing the assembly of a multi-gene family to Restriction Fragment Length Polymorphism (RFLP patterns seen in Southern blots, and 3 contig sequencing. Conclusion This is the first physical map for channel catfish. The HICF technique allowed the project to be finished with a limited amount of human resource in a high throughput manner. This physical map will greatly facilitate the detailed study of many different genomic regions in channel catfish, and the positional cloning of genes controlling economically important production traits.

  10. A first generation BAC-based physical map of the rainbow trout genome

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    Thorgaard Gary H

    2009-10-01

    Full Text Available Abstract Background Rainbow trout (Oncorhynchus mykiss are the most-widely cultivated cold freshwater fish in the world and an important model species for many research areas. Coupling great interest in this species as a research model with the need for genetic improvement of aquaculture production efficiency traits justifies the continued development of genomics research resources. Many quantitative trait loci (QTL have been identified for production and life-history traits in rainbow trout. A bacterial artificial chromosome (BAC physical map is needed to facilitate fine mapping of QTL and the selection of positional candidate genes for incorporation in marker-assisted selection (MAS for improving rainbow trout aquaculture production. This resource will also facilitate efforts to obtain and assemble a whole-genome reference sequence for this species. Results The physical map was constructed from DNA fingerprinting of 192,096 BAC clones using the 4-color high-information content fingerprinting (HICF method. The clones were assembled into physical map contigs using the finger-printing contig (FPC program. The map is composed of 4,173 contigs and 9,379 singletons. The total number of unique fingerprinting fragments (consensus bands in contigs is 1,185,157, which corresponds to an estimated physical length of 2.0 Gb. The map assembly was validated by 1 comparison with probe hybridization results and agarose gel fingerprinting contigs; and 2 anchoring large contigs to the microsatellite-based genetic linkage map. Conclusion The production and validation of the first BAC physical map of the rainbow trout genome is described in this paper. We are currently integrating this map with the NCCCWA genetic map using more than 200 microsatellites isolated from BAC end sequences and by identifying BACs that harbor more than 300 previously mapped markers. The availability of an integrated physical and genetic map will enable detailed comparative genome

  11. A BAC-based physical map of the Hessian fly genome anchored to polytene chromosomes

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    Fellers John P

    2009-07-01

    Full Text Available Abstract Background The Hessian fly (Mayetiola destructor is an important insect pest of wheat. It has tractable genetics, polytene chromosomes, and a small genome (158 Mb. Investigation of the Hessian fly presents excellent opportunities to study plant-insect interactions and the molecular mechanisms underlying genome imprinting and chromosome elimination. A physical map is needed to improve the ability to perform both positional cloning and comparative genomic analyses with the fully sequenced genomes of other dipteran species. Results An FPC-based genome wide physical map of the Hessian fly was constructed and anchored to the insect's polytene chromosomes. Bacterial artificial chromosome (BAC clones corresponding to 12-fold coverage of the Hessian fly genome were fingerprinted, using high information content fingerprinting (HIFC methodology, and end-sequenced. Fluorescence in situ hybridization (FISH co-localized two BAC clones from each of the 196 longest contigs on the polytene chromosomes. An additional 70 contigs were positioned using a single FISH probe. The 266 FISH mapped contigs were evenly distributed and covered 60% of the genome (95,668 kb. The ends of the fingerprinted BACs were then sequenced to develop the capacity to create sequenced tagged site (STS markers on the BACs in the map. Only 3.64% of the BAC-end sequence was composed of transposable elements, helicases, ribosomal repeats, simple sequence repeats, and sequences of low complexity. A relatively large fraction (14.27% of the BES was comprised of multi-copy gene sequences. Nearly 1% of the end sequence was composed of simple sequence repeats (SSRs. Conclusion This physical map provides the foundation for high-resolution genetic mapping, map-based cloning, and assembly of complete genome sequencing data. The results indicate that restriction fragment length heterogeneity in BAC libraries used to construct physical maps lower the length and the depth of the contigs, but is

  12. The first generation of a BAC-based physical map of Brassica rapa

    OpenAIRE

    Lee Soo; Lim Myung-Ho; Kim Jin A; Jin Mina; Kim Jung; Baek Seunghoon; Choi Beom-Soon; Kim Hye-Sun; Yang Tae-Jin; Kwon Soo-Jin; Mun Jeong-Hwan; Kim Ho-Il; Kim Hyungtae; Lim Yong; Park Beom-Seok

    2008-01-01

    Abstract Background The genus Brassica includes the most extensively cultivated vegetable crops worldwide. Investigation of the Brassica genome presents excellent challenges to study plant genome evolution and divergence of gene function associated with polyploidy and genome hybridization. A physical map of the B. rapa genome is a fundamental tool for analysis of Brassica "A" genome structure. Integration of a physical map with an existing genetic map by linking genetic markers and BAC clones...

  13. Comparative BAC-based mapping in the white-throated sparrow, a novel behavioral genomics model, using interspecies overgo hybridization

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    Gonser Rusty A

    2011-06-01

    Full Text Available Abstract Background The genomics era has produced an arsenal of resources from sequenced organisms allowing researchers to target species that do not have comparable mapping and sequence information. These new "non-model" organisms offer unique opportunities to examine environmental effects on genomic patterns and processes. Here we use comparative mapping as a first step in characterizing the genome organization of a novel animal model, the white-throated sparrow (Zonotrichia albicollis, which occurs as white or tan morphs that exhibit alternative behaviors and physiology. Morph is determined by the presence or absence of a complex chromosomal rearrangement. This species is an ideal model for behavioral genomics because the association between genotype and phenotype is absolute, making it possible to identify the genomic bases of phenotypic variation. Findings We initiated a genomic study in this species by characterizing the white-throated sparrow BAC library via filter hybridization with overgo probes designed for the chicken, turkey, and zebra finch. Cross-species hybridization resulted in 640 positive sparrow BACs assigned to 77 chicken loci across almost all macro-and microchromosomes, with a focus on the chromosomes associated with morph. Out of 216 overgos, 36% of the probes hybridized successfully, with an average number of 3.0 positive sparrow BACs per overgo. Conclusions These data will be utilized for determining chromosomal architecture and for fine-scale mapping of candidate genes associated with phenotypic differences. Our research confirms the utility of interspecies hybridization for developing comparative maps in other non-model organisms.

  14. A high-resolution physical map integrating an anchored chromosome with the BAC physical maps of wheat chromosome 6B

    OpenAIRE

    Kobayashi, F; Wu, J. Z.; Kanamori, H; Tanaka, T.; Katagiri, S.; Karasawa, W.; Kaneko, S.; Watanabe, S; Sakaguchi, T; Šafář, J. (Jan); Šimková, H. (Hana); Mukai, Y.; M. Hamada; Saito, M; Hayakawa, K

    2015-01-01

    Background: A complete genome sequence is an essential tool for the genetic improvement of wheat. Because the wheat genome is large, highly repetitive and complex due to its allohexaploid nature, the International Wheat Genome Sequencing Consortium (IWGSC) chose a strategy that involves constructing bacterial artificial chromosome (BAC)-based physical maps of individual chromosomes and performing BAC-by-BAC sequencing. Here, we report the construction of a physical map of chromosome 6B with t...

  15. Physical map-assisted whole-genome shotgun sequence assemblies

    OpenAIRE

    Warren, René L.; Varabei, Dmitry; Platt, Darren; Huang, Xiaoqiu; Messina, David; Yang, Shiaw-Pyng; Kronstad, James W.; Krzywinski, Martin; Warren, Wesley C; Wallis, John W.; Hillier, LaDeana W.; Chinwalla, Asif T.; Schein, Jacqueline E.; Siddiqui, Asim S.; Marra, Marco A.

    2006-01-01

    We describe a targeted approach to improve the contiguity of whole-genome shotgun sequence (WGS) assemblies at run-time, using information from Bacterial Artificial Chromosome (BAC)-based physical maps. Clone sizes and overlaps derived from clone fingerprints are used for the calculation of length constraints between any two BAC neighbors sharing 40% of their size. These constraints are used to promote the linkage and guide the arrangement of sequence contigs within a sequence scaffold at the...

  16. A comparative physical map reveals the pattern of chromosomal evolution between the turkey (Meleagris gallopavo and chicken (Gallus gallus genomes

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    Delany Mary E

    2011-09-01

    Full Text Available Abstract Background A robust bacterial artificial chromosome (BAC-based physical map is essential for many aspects of genomics research, including an understanding of chromosome evolution, high-resolution genome mapping, marker-assisted breeding, positional cloning of genes, and quantitative trait analysis. To facilitate turkey genetics research and better understand avian genome evolution, a BAC-based integrated physical, genetic, and comparative map was developed for this important agricultural species. Results The turkey genome physical map was constructed based on 74,013 BAC fingerprints (11.9 × coverage from two independent libraries, and it was integrated with the turkey genetic map and chicken genome sequence using over 41,400 BAC assignments identified by 3,499 overgo hybridization probes along with > 43,000 BAC end sequences. The physical-comparative map consists of 74 BAC contigs, with an average contig size of 13.6 Mb. All but four of the turkey chromosomes were spanned on this map by three or fewer contigs, with 14 chromosomes spanned by a single contig and nine chromosomes spanned by two contigs. This map predicts 20 to 27 major rearrangements distinguishing turkey and chicken chromosomes, despite up to 40 million years of separate evolution between the two species. These data elucidate the chromosomal evolutionary pattern within the Phasianidae that led to the modern turkey and chicken karyotypes. The predominant rearrangement mode involves intra-chromosomal inversions, and there is a clear bias for these to result in centromere locations at or near telomeres in turkey chromosomes, in comparison to interstitial centromeres in the orthologous chicken chromosomes. Conclusion The BAC-based turkey-chicken comparative map provides novel insights into the evolution of avian genomes, a framework for assembly of turkey whole genome shotgun sequencing data, and tools for enhanced genetic improvement of these important agricultural and

  17. Chicken genome mapping - Constructing part of a road map for mining this bird's DNA

    NARCIS (Netherlands)

    Aerts, J.

    2005-01-01

    The aim of the research presented in this thesis was to aid in the international chicken genome mapping effort. To this purpose, a significant contribution was made to the construction of the chicken whole-genome BAC-based physical map (presented in Chapter A). An important aspect of this constructi

  18. An integrated physical, genetic and cytogenetic map of Brachypodium distachyon, a model system for grass research.

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    Melanie Febrer

    Full Text Available The pooid subfamily of grasses includes some of the most important crop, forage and turf species, such as wheat, barley and Lolium. Developing genomic resources, such as whole-genome physical maps, for analysing the large and complex genomes of these crops and for facilitating biological research in grasses is an important goal in plant biology. We describe a bacterial artificial chromosome (BAC-based physical map of the wild pooid grass Brachypodium distachyon and integrate this with whole genome shotgun sequence (WGS assemblies using BAC end sequences (BES. The resulting physical map contains 26 contigs spanning the 272 Mb genome. BES from the physical map were also used to integrate a genetic map. This provides an independent validation and confirmation of the published WGS assembly. Mapped BACs were used in Fluorescence In Situ Hybridisation (FISH experiments to align the integrated physical map and sequence assemblies to chromosomes with high resolution. The physical, genetic and cytogenetic maps, integrated with whole genome shotgun sequence assemblies, enhance the accuracy and durability of this important genome sequence and will directly facilitate gene isolation.

  19. An Integrated Map of Soybean Physical Map and Genetic Map

    Institute of Scientific and Technical Information of China (English)

    QI Zhaoming; LI Hui; WU Qiong; SUN Yanan; LIU Chunyan; HU Guohua; CHEN Qingshan

    2009-01-01

    Soybean is a major crop in the world, and it is a main source of plant proteins and oil. A lot of soybean genetic maps and physical maps have been constructed, but there are no integrated map between soybean physical map and genetic map. In this study, soybean genome sequence data, released by JGI (US Department of Energy's Joint Genome Institute), had been downloaded. With the software Blast 2.2.16, a total of 161 super sequences were mapped on the soybean public genetic map to construct an integrated map. The length of these super sequences accounted for 73.08% of all the genome sequence. This integrated map could be used for gene cloning, gene mining, and comparative genome of legume.

  20. Statistical methods in physical mapping

    International Nuclear Information System (INIS)

    One of the great success stories of modern molecular genetics has been the ability of biologists to isolate and characterize the genes responsible for serious inherited diseases like fragile X syndrome, cystic fibrosis and myotonic muscular dystrophy. This dissertation concentrates on constructing high-resolution physical maps. It demonstrates how probabilistic modeling and statistical analysis can aid molecular geneticists in the tasks of planning, execution, and evaluation of physical maps of chromosomes and large chromosomal regions. The dissertation is divided into six chapters. Chapter 1 provides an introduction to the field of physical mapping, describing the role of physical mapping in gene isolation and ill past efforts at mapping chromosomal regions. The next two chapters review and extend known results on predicting progress in large mapping projects. Such predictions help project planners decide between various approaches and tactics for mapping large regions of the human genome. Chapter 2 shows how probability models have been used in the past to predict progress in mapping projects. Chapter 3 presents new results, based on stationary point process theory, for progress measures for mapping projects based on directed mapping strategies. Chapter 4 describes in detail the construction of all initial high-resolution physical map for human chromosome 19. This chapter introduces the probability and statistical models involved in map construction in the context of a large, ongoing physical mapping project. Chapter 5 concentrates on one such model, the trinomial model. This chapter contains new results on the large-sample behavior of this model, including distributional results, asymptotic moments, and detection error rates. In addition, it contains an optimality result concerning experimental procedures based on the trinomial model. The last chapter explores unsolved problems and describes future work

  1. Statistical methods in physical mapping

    Energy Technology Data Exchange (ETDEWEB)

    Nelson, D.O. [Univ. of California, Berkeley, CA (United States)

    1995-05-01

    One of the great success stories of modern molecular genetics has been the ability of biologists to isolate and characterize the genes responsible for serious inherited diseases like fragile X syndrome, cystic fibrosis and myotonic muscular dystrophy. This dissertation concentrates on constructing high-resolution physical maps. It demonstrates how probabilistic modeling and statistical analysis can aid molecular geneticists in the tasks of planning, execution, and evaluation of physical maps of chromosomes and large chromosomal regions. The dissertation is divided into six chapters. Chapter 1 provides an introduction to the field of physical mapping, describing the role of physical mapping in gene isolation and ill past efforts at mapping chromosomal regions. The next two chapters review and extend known results on predicting progress in large mapping projects. Such predictions help project planners decide between various approaches and tactics for mapping large regions of the human genome. Chapter 2 shows how probability models have been used in the past to predict progress in mapping projects. Chapter 3 presents new results, based on stationary point process theory, for progress measures for mapping projects based on directed mapping strategies. Chapter 4 describes in detail the construction of all initial high-resolution physical map for human chromosome 19. This chapter introduces the probability and statistical models involved in map construction in the context of a large, ongoing physical mapping project. Chapter 5 concentrates on one such model, the trinomial model. This chapter contains new results on the large-sample behavior of this model, including distributional results, asymptotic moments, and detection error rates. In addition, it contains an optimality result concerning experimental procedures based on the trinomial model. The last chapter explores unsolved problems and describes future work.

  2. Evaluation of chronic lymphocytic leukemia by BAC-based microarray analysis

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    McDaniel Lisa D

    2011-02-01

    Full Text Available Abstract Background Chronic lymphocytic leukemia (CLL is a highly variable disease with life expectancies ranging from months to decades. Cytogenetic findings play an integral role in defining the prognostic significance and treatment for individual patients. Results We have evaluated 25 clinical cases from a tertiary cancer center that have an established diagnosis of CLL and for which there was prior cytogenetic and/or fluorescence in situ hybridization (FISH data. We performed microarray-based comparative genomic hybridization (aCGH using a bacterial artificial chromosome (BAC-based microarray designed for the detection of known constitutional genetic syndromes. In 15 of the 25 cases, aCGH detected all copy number imbalances identified by prior cytogenetic and/or FISH studies. For the majority of those not detected, the aberrations were present at low levels of mosaicism. Furthermore, for 15 of the 25 cases, additional abnormalities were detected. Four of those cases had deletions that mapped to intervals implicated in inherited predisposition to CLL. For most cases, aCGH was able to detect abnormalities present in as few as 10% of cells. Although changes in ploidy are not easily discernable by aCGH, results for two cases illustrate the detection of additional copy gains and losses present within a mosaic tetraploid cell population. Conclusions Our results illustrate the successful evaluation of CLL using a microarray optimized for the interrogation of inherited disorders and the identification of alterations with possible relevance to CLL susceptibility.

  3. Map of the Physical Sciences

    Energy Technology Data Exchange (ETDEWEB)

    Boyack, Kevin W.

    1999-07-02

    Various efforts to map the structure of science have been undertaken over the years. Using a new tool, VxInsight{trademark}, we have mapped and displayed 3000 journals in the physical sciences. This map is navigable and interactively reveals the structure of science at many different levels. Science mapping studies are typically focused at either the macro-or micro-level. At a macro-level such studies seek to determine the basic structural units of science and their interrelationships. The majority of studies are performed at the discipline or specialty level, and seek to inform science policy and technical decision makers. Studies at both levels probe the dynamic nature of science, and the implications of the changes. A variety of databases and methods have been used for these studies. Primary among databases are the citation indices (SCI and SSCI) from the Institute for Scientific Information, which have gained widespread acceptance for bibliometric studies. Maps are most often based on computed similarities between journal articles (co-citation), keywords or topics (co-occurrence or co-classification), or journals (journal-journal citation counts). Once the similarity matrix is defined, algorithms are used to cluster the data.

  4. Conceptual and Mind Maps in Physics Education

    OpenAIRE

    KROTIL, Daniel

    2014-01-01

    This diploma thesis tries to analyze aspects of mind mapping as an effective instrument for active and creative teaching of physics at the elementary school and high school. The opening part contains basic knowledge of learning theories, creativity, psychological aspects of mind mapping, difference between mind mapping and conceptual mapping and methodology of the mind mapping. Practical part of the thesis contains methodical advice for teaching physics using mind maps in different levels of ...

  5. A BAC-based transgenic mouse specifically expresses an inducible Cre in the urothelium.

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    Tian Huai Shen

    Full Text Available Cre-loxp mediated conditional knockout strategy has played critical roles for revealing functions of many genes essential for development, as well as the causal relationships between gene mutations and diseases in the postnatal adult mice. One key factor of this strategy is the availability of mice with tissue- or cell type-specific Cre expression. However, the success of the traditional molecular cloning approach to generate mice with tissue specific Cre expression often depends on luck. Here we provide a better alternative by using bacterial artificial chromosome (BAC-based recombineering to insert iCreERT2 cDNA at the ATG start of the Upk2 gene. The BAC-based transgenic mice express the inducible Cre specifically in the urothelium as demonstrated by mRNA expression and staining for LacZ expression after crossing with a Rosa26 reporter mouse. Taking into consideration the size of the gene of interest and neighboring genes included in a BAC, this method should be widely applicable for generation of mice with tissue specific gene expression or deletions in a more specific manner than previously reported.

  6. Feasibility of physical map construction from fingerprinted bacterial artificial chromosome libraries of polyploid plant species

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    Doležel Jaroslav

    2010-02-01

    Full Text Available Abstract Background The presence of closely related genomes in polyploid species makes the assembly of total genomic sequence from shotgun sequence reads produced by the current sequencing platforms exceedingly difficult, if not impossible. Genomes of polyploid species could be sequenced following the ordered-clone sequencing approach employing contigs of bacterial artificial chromosome (BAC clones and BAC-based physical maps. Although BAC contigs can currently be constructed for virtually any diploid organism with the SNaPshot high-information-content-fingerprinting (HICF technology, it is currently unknown if this is also true for polyploid species. It is possible that BAC clones from orthologous regions of homoeologous chromosomes would share numerous restriction fragments and be therefore included into common contigs. Because of this and other concerns, physical mapping utilizing the SNaPshot HICF of BAC libraries of polyploid species has not been pursued and the possibility of doing so has not been assessed. The sole exception has been in common wheat, an allohexaploid in which it is possible to construct single-chromosome or single-chromosome-arm BAC libraries from DNA of flow-sorted chromosomes and bypass the obstacles created by polyploidy. Results The potential of the SNaPshot HICF technology for physical mapping of polyploid plants utilizing global BAC libraries was evaluated by assembling contigs of fingerprinted clones in an in silico merged BAC library composed of single-chromosome libraries of two wheat homoeologous chromosome arms, 3AS and 3DS, and complete chromosome 3B. Because the chromosome arm origin of each clone was known, it was possible to estimate the fidelity of contig assembly. On average 97.78% or more clones, depending on the library, were from a single chromosome arm. A large portion of the remaining clones was shown to be library contamination from other chromosomes, a feature that is unavoidable during the

  7. Physical mapping and cloning of RAD56

    DEFF Research Database (Denmark)

    Mathiasen, David P; Gallina, Irene; Germann, Susanne Manuela;

    2013-01-01

    Here we report the physical mapping of the rad56-1 mutation to the NAT3 gene, which encodes the catalytic subunit of the NatB N-terminal acetyltransferase in Saccharomyces cerevisiae. Mutation of RAD56 causes sensitivity to X-rays, methyl methanesulfonate, zeocin, camptothecin and hydroxyurea, bu...

  8. BAC-HAPPY mapping (BAP mapping): a new and efficient protocol for physical mapping.

    Science.gov (United States)

    Vu, Giang T H; Dear, Paul H; Caligari, Peter D S; Wilkinson, Mike J

    2010-02-08

    Physical and linkage mapping underpin efforts to sequence and characterize the genomes of eukaryotic organisms by providing a skeleton framework for whole genome assembly. Hitherto, linkage and physical "contig" maps were generated independently prior to merging. Here, we develop a new and easy method, BAC HAPPY MAPPING (BAP mapping), that utilizes BAC library pools as a HAPPY mapping panel together with an Mbp-sized DNA panel to integrate the linkage and physical mapping efforts into one pipeline. Using Arabidopsis thaliana as an exemplar, a set of 40 Sequence Tagged Site (STS) markers spanning approximately 10% of chromosome 4 were simultaneously assembled onto a BAP map compiled using both a series of BAC pools each comprising 0.7x genome coverage and dilute (0.7x genome) samples of sheared genomic DNA. The resultant BAP map overcomes the need for polymorphic loci to separate genetic loci by recombination and allows physical mapping in segments of suppressed recombination that are difficult to analyze using traditional mapping techniques. Even virtual "BAC-HAPPY-mapping" to convert BAC landing data into BAC linkage contigs is possible.

  9. piggyBac-based insertional mutagenesis in the presence of stably integrated P elements in Drosophila.

    Science.gov (United States)

    Hacker, Udo; Nystedt, Sverker; Barmchi, Mojgan Padash; Horn, Carsten; Wimmer, Ernst A

    2003-06-24

    P element-mediated mutagenesis has been used to disrupt an estimated 25% of genes essential for Drosophila adult viability. Mutation of all genes in the fly genome, however, poses a problem, because P elements show significant hotspots of integration. In addition, advanced screening scenarios often require the use of P element-based tools like the generation of germ-line mosaics using FLP recombinase-mediated recombination or gene misexpression using the UAS/Gal4 system. These techniques are P element-based and can therefore not be combined with the use of P elements as mutagenic agents. To circumvent these limitations, we have developed an insertional mutagenesis system using non-P element transposons. An enhanced yellow fluorescent protein-marked piggyBac-based mutator element was mobilized by a piggyBac specific transposase source expressed from a Hermes-based jump-starter transposon marked with enhanced cyan fluorescent protein. In a pilot screen, we have generated 798 piggyBac insertions on FRT bearing third chromosomes of which 9% have sustained a putatively piggyBac-related lethal hit. The FRTs present on the target chromosome remained stably integrated during the screen and could subsequently be used to generate germ-line clones associated with maternal and zygotic phenotypes. PCR-based analysis of insertion loci shows that 57% of the insertions are in genes for which no P element insertions have been reported. Our data demonstrate the potential of this technique to facilitate the quest for saturation mutagenesis of the Drosophila genome. The system is Drosophila nonspecific and potentially applicable in a broad spectrum of nonmodel organisms. PMID:12802016

  10. Sequence finishing and mapping of Drosophila melanogasterheterochromatin

    Energy Technology Data Exchange (ETDEWEB)

    Hoskins, Roger A.; Carlson, Joseph W.; Kennedy, Cameron; Acevedo,David; Evans-Holm, Martha; Frise, Erwin; Wan, Kenneth H.; Park, Soo; Mendez-Lago, Maria; Rossi, Fabrizio; Villasante, Alfredo; Dimitri,Patrizio; Karpen, Gary H.; Celniker, Susan E.

    2007-06-15

    Genome sequences for most metazoans are incomplete due tothe presence of repeated DNA in the pericentromeric heterochromatin. Theheterochromatic regions of D. melanogaster contain 20 Mb of sequenceamenable to mapping, sequence assembly and finishing. Here we describethe generation of 15 Mb of finished or improved heterochromatic sequenceusing available clone resources and assembly and mapping methods. We alsoconstructed a BAC-based physical map that spans approximately 13 Mb ofthe pericentromeric heterochromatin, and a cytogenetic map that positionsapproximately 11 Mb of BAC contigs and sequence scaffolds in specificchromosomal locations. The integrated sequence assembly and maps greatlyimprove our understanding of the structure and composition of this poorlyunderstood fraction of a metazoan genome and provide a framework forfunctional analyses.

  11. A Physical Map for an Asian Malaria Mosquito, Anopheles stephensi

    OpenAIRE

    Maria V Sharakhova; Xia, Ai; Tu, Zhijian; Shouche, Yogesh S.; Unger, Maria F; Sharakhov, Igor V

    2010-01-01

    Physical mapping is a useful approach for studying genome organization and evolution as well as for genome sequence assembly. The availability of polytene chromosomes in malaria mosquitoes provides a unique opportunity to develop high-resolution physical maps. We report a 0.6-Mb-resolution physical map consisting of 422 DNA markers hybridized to 379 chromosomal sites of the Anopheles stephensi polytene chromosomes. This makes An. stephensi second only to Anopheles gambiae in density of a phys...

  12. A physical map of the human genome

    Energy Technology Data Exchange (ETDEWEB)

    McPherson, J.D.; Marra, M.; Hillier, L.; Waterston, R.H.; Chinwalla, A.; Wallis, J.; Sekhon, M.; Wylie, K.; Mardis, E.R.; Wilson, R.K.; Fulton, R.; Kucaba, T.A.; Wagner-McPherson, C.; Barbazuk, W.B.; Gregory, S.G.; Humphray, S.J.; French, L.; Evans, R.S.; Bethel, G.; Whittaker, A.; Holden, J.L.; McCann, O.T.; Dunham, A.; Soderlund, C.; Scott, C.E.; Bentley, D.R.; Schuler, G.; Chen, H.-C.; Jang, W.; Green, E.D.; Idol, J.R.; Maduro, V.V. Braden; Montgomery, K.T.; Lee, E.; Miller, A.; Emerling, S.; Kucherlapati; Gibbs, R.; Scherer, S.; Gorrell, J.H.; Sodergren, E.; Clerc-Blankenburg, K.; Tabor, P.; Naylor, S.; Garcia, D.; de Jong, P.J.; Catanese, J.J.; Nowak, N.; Osoegawa, K.; Qin, S.; Rowen, L.; Madan, A.; Dors, M.; Hood, L.; Trask, B.; Friedman, C.; Massa, H.; Cheung, V.G.; Kirsch, I.R.; Reid, T.; Yonescu, R.; Weissenbach, J.; Bruls, T.; Heilig, R.; Branscomb, E.; Olsen, A.; Doggett, N.; Cheng, J.F.; Hawkins, T.; Myers, R.M.; Shang, J.; Ramirez, L.; Schmutz, J.; Velasquez, O.; Dixon, K.; Stone, N.E.; Cox, D.R.; Haussler, D.; Kent, W.J.; Furey, T.; Rogic, S.; Kennedy, S.; Jones, S.; Rosenthal, A.; Wen, G.; Schilhabel, M.; Gloeckner, G.; Nyakatura, G.; Siebert, R.; Schlegelberger, B.; Korenberg, J.; Chen, X.N.; Fujiyama, A.; Hattori, M.; Toyoda, A.; Yada, T.; Park, H.S.; Sakaki, Y.; Shimizu, N.; Asakawa, S.; Kawasaki, K.; Sasaki, T.; Shintani, A.; Shimizu, A.; Shibuya, K.; Kudoh, J.; Minoshima, S.; Ramser, J.; Seranski, P.; Hoff, C.; Poustka, A.; Reinhardt, R.; Lehrach, H.

    2001-01-01

    The human genome is by far the largest genome to be sequenced, and its size and complexity present many challenges for sequence assembly. The International Human Genome Sequencing Consortium constructed a map of the whole genome to enable the selection of clones for sequencing and for the accurate assembly of the genome sequence. Here we report the construction of the whole-genome bacterial artificial chromosome (BAC) map and its integration with previous landmark maps and information from mapping efforts focused on specific chromosomal regions. We also describe the integration of sequence data with the map.

  13. On structural physical approximations and entanglement breaking maps

    CERN Document Server

    Augusiak, Remigiusz; Czekaj, Łukasz; Lewenstein, Maciej

    2010-01-01

    Very recently a conjecture saying that the so-called structural physical approximations to optimal positive maps (optimal entanglement witnesses) give entanglement breaking (EB) maps (separable states) has been posed [J. K. Korbicz et al., Phys. Rev. A 78, 062105 (2008)]. The main purpose of this contribution is to explore this subject. First, we extend the set of witnesses obeying the conjecture. Then, we ask if structural physical approximations constructed from other than the depolarizing channel maps also lead to some EB maps. We formulate and prove a weaker conjecture stating that for any positive map there exists an entanglement breaking map such that SPA constructed from it is entanglement breaking. Finally, we ask similar questions in the case of continuous variable systems. We provide a simple way of contraction of SPA, and prove that in the case of the transposition map it gives entanglement breaking channel.

  14. The Construction of Mental Maps Based on a Fragmentary View of Physical Maps

    Science.gov (United States)

    Zimmer, Hubert D.

    2004-01-01

    Participants acquired spatial knowledge of a fictitious island by studying either (a) a complete physical map, (b) a sequence of part maps each showing the outline of the island and a subset of the landmarks, or (c) a sequence of sentences each describing a part map. During test, they verified the direction between 2 landmarks. Spatial knowledge…

  15. Correlation of physical and genetic maps of human chromosome 16

    Energy Technology Data Exchange (ETDEWEB)

    Sutherland, G.R.

    1991-01-01

    This project aimed to divide chromosome 16 into approximately 50 intervals of {approximately}2Mb in size by constructing a series of mouse/human somatic cell hybrids each containing a rearranged chromosome 16. Using these hybrids, DNA probes would be regionally mapped by Southern blot or PCR analysis. Preference would be given to mapping probes which demonstrated polymorphisms for which the CEPH panel of families had been typed. This would allow a correlation of the physical and linkage maps of this chromosome. The aims have been substantially achieved. 49 somatic cell hybrids have been constructed which have allowed definition of 46, and potentially 57, different physical intervals on the chromosome. 164 loci have been fully mapped into these intervals. A correlation of the physical and genetic maps of the chromosome is in an advanced stage of preparation. The somatic cell hybrids constructed have been widely distributed to groups working on chromosome 16 and other genome projects.

  16. Construction of the Primary Physical Map of Rice Chromosome 12

    Institute of Scientific and Technical Information of China (English)

    2000-01-01

    A primary physical map of rice chromosome 12 was constructed using marker-based chromosome landing and chromosome walking. A BAC library from IR64 was screened using 84 RFLP markers, 4 STS markers and 6 microsatellite markers on chromosome 12 by colony hybridization and polymerase chain reaction (PCR) amplification. A total of 59 contigs consisting of 419 BAC clones including 5 single-clones were physically aligned on rice chromosome 12 with the largest BAC contig covering 855 kb. The whole physical map had a size of ~16 Mb and covered about 52% of rice chromosome 12. This physical map will be certainly helpful for map-based gene cloning of agronomically and biological important genes and understanding the genome structure of the chromosome.

  17. Using Concept Maps with Trainee Physics Teachers.

    Science.gov (United States)

    Adamczyk, Peter; Willson, Mike

    1996-01-01

    Describes how the technique of concept mapping can be useful for identifying gaps in preservice teachers' knowledge. Validity of the technique was tested using blind interviews with a representative sample of eight trainees. Has potential as a valuable self-diagnostic tool for teachers teaching outside their area of specialization. (DDR)

  18. Cortical cartography reveals political and physical maps.

    Science.gov (United States)

    Loring, David W; Gaillard, William Davis; Bookheimer, Susan Y; Meador, Kimford J; Ojemann, Jeffrey G

    2014-05-01

    Advances in functional imaging have provided noninvasive techniques to probe brain organization of multiple constructs including language and memory. Because of high overall rates of agreements with older techniques, including Wada testing and cortical stimulation mapping (CSM), some have proposed that those approaches should be largely abandoned because of their invasiveness, and replaced with noninvasive functional imaging methods. High overall agreement, however, is based largely on concordant language lateralization in series dominated by cases of typical cerebral dominance. Advocating a universal switch from Wada testing and cortical stimulation mapping to functional magnetic resonance imaging (fMRI) or magnetoencephalography (MEG) ignores the differences in specific expertise across epilepsy centers, many of which often have greater skill with one approach rather than the other, and that Wada, CSM, fMRI, and MEG protocols vary across institutions resulting in different outcomes and reliability. Specific patient characteristics also affect whether Wada or CSM might influence surgical management, making it difficult to accept broad recommendations against currently useful clinical tools. Although the development of noninvasive techniques has diminished the frequency of more invasive approaches, advocating their use to replace Wada testing and CSM across all epilepsy surgery programs without consideration of the different skills, protocols, and expertise at any given center site is ill-advised.

  19. What Do Pre-Service Physics Teachers Know and Think about Concept Mapping?

    Science.gov (United States)

    Didis, Nilüfer; Özcan, Özgür; Azar, Ali

    2014-01-01

    In order to use concept maps in physics classes effectively, teachers' knowledge and ideas about concept mapping are as important as the physics knowledge used in mapping. For this reason, we aimed to examine pre-service physics teachers' knowledge on concept mapping, their ideas about the implementation of concept mapping in physics…

  20. Genetic and physical mapping of the bovine X chromosome

    Energy Technology Data Exchange (ETDEWEB)

    Yeh, Chen Chen; Taylor, J.F.; Sanders, J. O. [Texas A& M Univ., College Station, TX (United States)] [and others

    1996-03-01

    Three hundred eighty reciprocal backcross and F{sub 2} full sib progeny from 33 families produced by embryo transfer from 77 Angus (Bos taurus), Brahman (Bos indicus), and F{sub 1} parents and grandparents were used to construct genetic maps of the bovine X and Y chromosomes. All individuals were scored for 15 microsatellite loci, with an average of 608 informative meioses per locus. The length of the bovine X chromosome genetic map was 118.7 cM (female only) and of the pseudoautosomal region was 13.0 cM (male only). The 15-marker framework map in Kosambi centimorgans is (BM6017-6.1-TGLA89-35.8-TEXAN13-3.4-TGLA128-1.3-BM2713-21.1-BM4604-2.4-BR215-12.9-TGLA68-10.0-BM4321-1.0-HEL14-4.9-TGLA15-2.3-INRA120-12.5-TGLA325-1.6-MAF45-3.2-INRA30), with an average interval of 7.91 cM. Clones containing pseudoautosomal or sex-linked microsatellites were isolated from a bovine bacterial artificial chromosome library and were physically mapped to bovine metaphase chromosomes by fluorescence in situ hybridization to orient the X and Y chromosome maps. BAC57, containing the pseudoautosomal microsatellite INRA30, mapped to the distal end of the long arm of the X chromosome at q42-ter and to the short arm of the Y chromosome at p13-ter. This confirms the published assignment of this region to Yp12-ter, but challenges the published assignment of Xp14-ter and thus reorients the X chromosome physical map. BAC204, containing the X-linked microsatellite BM4604, mapped to the middle of the long arm of the X chromosome at q26-q31. The position of the physically mapped to the middle of the long arm of the X chromosome at q26-q31. The position of the physically mapped markers indicates either a lack of microsatellite markers for a large (30 to 50 cM) region of the short arm of the X chromosome or heterogeneity of recombination along the X chromosome. 46 refs., 2 figs., 3 tabs.

  1. Physical Mapping Using Simulated Annealing and Evolutionary Algorithms

    DEFF Research Database (Denmark)

    Vesterstrøm, Jacob Svaneborg

    2003-01-01

    Physical mapping (PM) is a method of bioinformatics that assists in DNA sequencing. The goal is to determine the order of a collection of fragments taken from a DNA strand, given knowledge of certain unique DNA markers contained in the fragments. Simulated annealing (SA) is the most widely used...

  2. Linkage Map of Escherichia coli K-12, Edition 10: The Physical Map

    OpenAIRE

    Rudd, Kenneth E.

    1998-01-01

    A physical map, EcoMap10, of the now completely sequenced Escherichia coli chromosome is presented. Calculated genomic positions for the eight restriction enzymes BamHI, HindIII, EcoRI, EcoRV, BglI, KpnI, PstI, and PvuII are depicted. Both sequenced and unsequenced Kohara/Isono miniset clones are aligned to this calculated restriction map. DNA sequence searches identify the precise locations of insertion sequence elements and repetitive extragenic palindrome clusters. EcoGene10, a revised set...

  3. Cognitive Mapping of Advanced Level Physics Students' Conceptions of Quantum Physics.

    Science.gov (United States)

    Mashhadi, Azam; Woolnough, Brian

    This paper presents findings from a study that investigated students' understanding of quantum phenomena and focused on how students incorporate the ideas of quantum physics into their overall cognitive framework. The heuristic metaphor of the map is used to construct graphic representations of students' understanding of quantum physics. The…

  4. Physical accessibility of non-completely positive maps

    CERN Document Server

    Carteret, H; Zyczkowski, K; Carteret, Hilary; Terno, Daniel R.; Zyczkowski, Karol

    2005-01-01

    We study classes of generalized dynamical maps which are not completely positive. We show that some of these maps correspond to actual, physical systems described in the environmental representation by a unitary dynamics of an extended system and the partial trace. The non complete positivity is due to certain prior correlations of the principal system with the environment. These correlation may have classical nature and no entanglement is necessary to generate a non CP dynamics. We discuss its applications to the dynamical decoupling and quantum channels.

  5. Genetic and physical mapping of the bovine X chromosome.

    Science.gov (United States)

    Yeh, C C; Taylor, J F; Gallagher, D S; Sanders, J O; Turner, J W; Davis, S K

    1996-03-01

    Three hundred eighty reciprocal backcross and F(2) full sib progeny from 33 families produced by embryo transfer from 77 Angus (Bos taurus), Brahman (Bos indicus), and F1 parents and grandparents were used to construct genetic maps of the bovine X and Y chromosomes. Ml individuals were scored for 15 microsatellite loci, with an average of 608 informative meioses per locus. The length of the bovine X chromosome genetic map was 118.7 cM (female only) and of the pseudoautosomal region was 13.0 cM (male only). The 15-marker framework map in Kosambi centimorgans is [BM6017-6.1 -TGLA89-35.8-TEXAN13-3.4-TGLA128-1.3 -BM2713 -21.1 -BM4604-2.4-BR215 - 12.9-TGLA68-10.0-BM4321 - 1.0-HEL14-4.9-TGLA15-2.3-INRA12O- 12.5-TGLA325- 1.6-MAF45-3.2-INRA3O], with an average interval of 7.91 cM. Clones containing pseudoautosomal or sex-linked microsatellites were isolated from a bovine bacterial artificial chromosome library and were physically mapped to bovine metaphase chromosomes by fluorescence in situ hybridization to orient the X and Y chromosome maps. BAC57, containing the pseudoautosomal microsatellite INRA3O, mapped to the distal end of the long arm of the X chromosome at q42-ter and to the short arm of the Y chromosome at p13-ter. This confirms the published assignment of this region to Ypl2-ter, but challenges the published assignment of Xpl4-ter and thus reorients the X chromosome physical map. BAC2O4, containing the X-linked microsatellite BM4604, mapped to the middle of the long arm of the X chromosome at q26-q31. The position of the physically mapped markers indicates either a lack of microsatellite markers for a large (30 to 50 cM) region of the short arm of the X chromosome or heterogeneity of recombination along the X chromosome. PMID:8833151

  6. Comparing the performance of various digital soil mapping approaches to map physical soil properties

    Science.gov (United States)

    Laborczi, Annamária; Takács, Katalin; Pásztor, László

    2015-04-01

    Spatial information on physical soil properties is intensely expected, in order to support environmental related and land use management decisions. One of the most widely used properties to characterize soils physically is particle size distribution (PSD), which determines soil water management and cultivability. According to their size, different particles can be categorized as clay, silt, or sand. The size intervals are defined by national or international textural classification systems. The relative percentage of sand, silt, and clay in the soil constitutes textural classes, which are also specified miscellaneously in various national and/or specialty systems. The most commonly used is the classification system of the United States Department of Agriculture (USDA). Soil texture information is essential input data in meteorological, hydrological and agricultural prediction modelling. Although Hungary has a great deal of legacy soil maps and other relevant soil information, it often occurs, that maps do not exist on a certain characteristic with the required thematic and/or spatial representation. The recent developments in digital soil mapping (DSM), however, provide wide opportunities for the elaboration of object specific soil maps (OSSM) with predefined parameters (resolution, accuracy, reliability etc.). Due to the simultaneous richness of available Hungarian legacy soil data, spatial inference methods and auxiliary environmental information, there is a high versatility of possible approaches for the compilation of a given soil map. This suggests the opportunity of optimization. For the creation of an OSSM one might intend to identify the optimum set of soil data, method and auxiliary co-variables optimized for the resources (data costs, computation requirements etc.). We started comprehensive analysis of the effects of the various DSM components on the accuracy of the output maps on pilot areas. The aim of this study is to compare and evaluate different

  7. Mapping of topological quantum circuits to physical hardware.

    Science.gov (United States)

    Paler, Alexandru; Devitt, Simon J; Nemoto, Kae; Polian, Ilia

    2014-01-01

    Topological quantum computation is a promising technique to achieve large-scale, error-corrected computation. Quantum hardware is used to create a large, 3-dimensional lattice of entangled qubits while performing computation requires strategic measurement in accordance with a topological circuit specification. The specification is a geometric structure that defines encoded information and fault-tolerant operations. The compilation of a topological circuit is one important aspect of programming a quantum computer, another is the mapping of the topological circuit into the operations performed by the hardware. Each qubit has to be controlled, and measurement results are needed to propagate encoded quantum information from input to output. In this work, we introduce an algorithm for mapping an topological circuit to the operations needed by the physical hardware. We determine the control commands for each qubit in the computer and the relevant measurements that are needed to track information as it moves through the circuit. PMID:24722360

  8. Mapping of Topological Quantum Circuits to Physical Hardware

    Science.gov (United States)

    Paler, Alexandru; Devitt, Simon J.; Nemoto, Kae; Polian, Ilia

    2014-04-01

    Topological quantum computation is a promising technique to achieve large-scale, error-corrected computation. Quantum hardware is used to create a large, 3-dimensional lattice of entangled qubits while performing computation requires strategic measurement in accordance with a topological circuit specification. The specification is a geometric structure that defines encoded information and fault-tolerant operations. The compilation of a topological circuit is one important aspect of programming a quantum computer, another is the mapping of the topological circuit into the operations performed by the hardware. Each qubit has to be controlled, and measurement results are needed to propagate encoded quantum information from input to output. In this work, we introduce an algorithm for mapping an topological circuit to the operations needed by the physical hardware. We determine the control commands for each qubit in the computer and the relevant measurements that are needed to track information as it moves through the circuit.

  9. Integration of the cytogenetic, genetic, and physical maps of the human genome by FISH mapping of CEPH YAC clones

    Energy Technology Data Exchange (ETDEWEB)

    Bray-Ward, P.; Menninger, J.; Lieman, J. [Yale Univ. School of Medicine, New Haven, CT (United States)] [and others

    1996-02-15

    This article discusses the genetic mapping of over 950 yeast artificial chromosome (YAC) clones on human chromosomes. This integration of the cytogenetic, genetic and physical maps of the human genome was accomplished using fluorescence in situ hybridization (FISH) mapping and the CEPH library of YAC clones. 27 refs., 2 figs., 1 tab.

  10. Physical and transcriptional map in the CMT 1A region

    Energy Technology Data Exchange (ETDEWEB)

    Chevillard, C.; Passage, E.; Cudrey, C. [INSERM Marseille (France)] [and others

    1994-09-01

    The Charcot-Marie-Tooth disease type 1A (CMT1A) has been mapped to the proximal short arm of chromosome 17. CMT1A is the most frequent of the motor and sensory peripheral neuropathies and is associated with a duplication of a 1.5 Mb fragment in proximal 17p12. Several groups have proposed that the gene coding for peripheral myelin protein-22 (PMP-22) as the candidate gene for CMT1A. We have recently published a {open_quote}MegaYAC{close_quote} contig of 6 Mb which covers the CMT1A critical region. In order to isolate new genes localized in this region, we used a {open_quote}physical trapping {close_quote} strategy derived from the direct cDNA selection technique developed by Parimoo et al. This approach has allowed us to construct cDNA {open_quotes}minilibraries{close_quotes} using YAC DNA from the CMT1A region. One of the clones in these minilibraries has been mapped back to the CMT1A duplication. Other potentially interesting clones are in the process of further characterization. Furthermore, we have mapped several Genethon microsatellites in the 6 Mb YAC contig and some are located in the CMT1A duplicated region. These highly polymorphic markers should prove useful for diagnostic testing in CMT1A.

  11. Algorithms for computing and integrating physical maps using unique probes.

    Science.gov (United States)

    Jain, M; Myers, E W

    1997-01-01

    Current physical mapping projects based on STS-probes involve additional clues such as the fact that some probes are anchored to a known map and that others come from the ends of clones. Because of the disparate combinatorial contributions of these varied data items, it is difficult to design a "tailored" algorithm that incorporates them all. Moreover, it is inevitable that new experiments will provide new kinds of data, making obsolete any such algorithm. We show how to convert the physical mapping problem into a 0/1 linear programming (LP) problem. We further show how one can incorporate additional clues as additional constraints in the LP formulation. We give a simple relaxation of the 0/1 LP problem, which solves problems of the same scale as previously reported tailored algorithms, to equal or greater optimization levels. We also present a theorem proving that when the data is 100% accurate, then the relaxed and integer solutions coincide. The LP algorithm suffices to solve problems on the order of 80-100 probes--the typical size of the 2- or 3-connected contigs of Arratia et al. (1991). We give a heuristic algorithm which attempts to order and link the set of LP-solved contigs. Unlike previous work, this algorithm only links and orders contigs when the join is 90% or more likely to be correct. It is our view that there is no value in computing an optimal solution with respect to some criteria over very noisy data as this optimal solution rarely corresponds to the true solution. The paper involves extensive empirical trials over real and simulated data. PMID:9385539

  12. Comparison of peanut gentics and physical maps provided insights on collinearity, reversions and translocations

    Science.gov (United States)

    Genetic and physical maps are the valuable resources for peanut research community in understanding genome organization and serving as the basis for map-based cloning and marker-assisted selection. Physical maps of two diploid wild peanut progenitor species, Arachis duranensis (A genome) and A. ipae...

  13. An integrated BAC/BIBAC-based physical and genetic map of the cotton genome

    Science.gov (United States)

    Integrated genome-wide genetic and physical maps are crucial to many aspects of cotton genome research. We report a genome-wide BAC/BIBAC-based physical and genetic map of the upland cotton genome using a high-resolution and high-throughput capillary-based fingerprinting method. The map was constr...

  14. Connexin32 mutations and Xq13 physical map

    Energy Technology Data Exchange (ETDEWEB)

    Johanson, R.A.; Bone, L.J. [Univ. of Pennsylvania School of Medicine, Philadelphia (United States); Neystat, M. [Columbia Univ., New York, NY (United States)] [and others

    1994-09-01

    Mutations in the gap junction protein connexin32 (Cx32) are associated with X-linked Charcot-Marie-Tooth disease (CMTX). We and others have identified 24 separate mutations in 27 families. The third transmembrane domain of Cx32 has two mutations that occur in multiple families: three unrelated families have the same missense mutation at codon 139 (Val to Met), and two additional unrelated families have a single base change in codon 142 (Arg to Trp). In order to physically map the region surrounding the Cx32 gene and identify regulatory sequences that could be affected by additional mutations, we are developing a contiguous set of YAC clones for the region (Xq13.1-13.3). The YACs were identified primarily by PCR-based screening of total genomic YAC libraries from CEPH and Genethon. Additional YACs were obtained from collaborating investigators and a local library. A total of 41 overlapping YACs were identified with the STSs DXS106, DXS453, DXS348, IL2RG, GJB1(Cx32), CCG1, DXS559, DXS227, DXS986, DXS1197, and DXS128. Overlap between the YACs was determined by shared STS content and by appearance of identical segments in inter-Alu PCR. The set of overlapping YAC clones helps to define the relationship between CMTX/Cx32 and the nearby gene for severe combined immunodeficiency syndrome (SCIDX/IL2RG), and it is now being used in localization of the gene for dystonia-parkinsonism syndrome (lubag disease, DYT3), which also maps to this region.

  15. Physical mapping of 49 microsatellite markers on chromosome 19 and correlation with the genetic linkage map

    Energy Technology Data Exchange (ETDEWEB)

    Reguigne-Arnould, I.; Mollicone, R.; Candelier, J.J. [INSERM, Villejuif (France)] [and others

    1996-03-05

    We have regionally localized 49 microsatellite markers developed by Genethon using a panel of previously characterized somatic cell hybrids that retain fragments from chromosome 19. The tight correlation observed between the physical and the genetic orders of the microsatellites provide cytogenetic anchorages to the genetic map data. We propose a position for the centromere just above D19S415, from the study of two hybrids, each of which retains one of the two derivatives of a balanced translocation t(1;19)(q11;q11). Microsatellites, which can be identified by a standard PCR protocol, are useful tools for the localization of disease genes and for the establishment of YAC or cosmid contigs. These markers can also judiciously be used for the characterization of new hybrid cell line panels. We report such a characterization of 11 clones, 8 of which were obtained by irradiation-fusion. Using the whole hybrid panel, we were able to define the order of 12 pairs of genetically colocalized microsatellites. As examples of gene mapping by the combined use of microsatellites and hybrid cell lines, we regionally assigned the PVS locus between the 19q13.2 markers D19S417 and D19S423 and confirmed the locations of fucosyltransferase loci FUT1, FUT2, and FUT5. 13 refs., 1 fig.

  16. A hybrid BAC physical map of potato: a framework for sequencing a heterozygous genome

    Directory of Open Access Journals (Sweden)

    de Boer Jan M

    2011-12-01

    Full Text Available Abstract Background Potato is the world's third most important food crop, yet cultivar improvement and genomic research in general remain difficult because of the heterozygous and tetraploid nature of its genome. The development of physical map resources that can facilitate genomic analyses in potato has so far been very limited. Here we present the methods of construction and the general statistics of the first two genome-wide BAC physical maps of potato, which were made from the heterozygous diploid clone RH89-039-16 (RH. Results First, a gel electrophoresis-based physical map was made by AFLP fingerprinting of 64478 BAC clones, which were aligned into 4150 contigs with an estimated total length of 1361 Mb. Screening of BAC pools, followed by the KeyMaps in silico anchoring procedure, identified 1725 AFLP markers in the physical map, and 1252 BAC contigs were anchored the ultradense potato genetic map. A second, sequence-tag-based physical map was constructed from 65919 whole genome profiling (WGP BAC fingerprints and these were aligned into 3601 BAC contigs spanning 1396 Mb. The 39733 BAC clones that overlap between both physical maps provided anchors to 1127 contigs in the WGP physical map, and reduced the number of contigs to around 2800 in each map separately. Both physical maps were 1.64 times longer than the 850 Mb potato genome. Genome heterozygosity and incomplete merging of BAC contigs are two factors that can explain this map inflation. The contig information of both physical maps was united in a single table that describes hybrid potato physical map. Conclusions The AFLP physical map has already been used by the Potato Genome Sequencing Consortium for sequencing 10% of the heterozygous genome of clone RH on a BAC-by-BAC basis. By layering a new WGP physical map on top of the AFLP physical map, a genetically anchored genome-wide framework of 322434 sequence tags has been created. This reference framework can be used for anchoring and

  17. The Construction of Mental Maps Based on a Fragmentary View of Physical Maps: Picture and Text Materials

    OpenAIRE

    Zimmer, Hubert

    2004-01-01

    Participants acquired spatial knowledge of a fictitious island by studying either (a) a complete physical map, (b) a sequence of part maps each showing the outline of the island and a subset of the landmarks, or (c) a sequence of sentences each describing a part map. During test, they verified the direction between 2 landmarks. Spatial knowledge in the fragment condition was as high as in the complete map condition, and both were better than the text group. Response times showed a distance ef...

  18. Validity and Responsiveness of Concept Map Assessment Scores in Physical Education

    Science.gov (United States)

    Lee, Yun Soo; Jang, Yongkyu; Kang, Minsoo

    2015-01-01

    Concept map assessment has been applied to many education areas to measure students' knowledge structure. However, the proper and valid use of concept map assessment has not been examined in physical education. The purpose of this study was to evaluate the evidence of validity and responsiveness of the concept map assessment scores in physical…

  19. The Effects of Integrating Computer-Based Concept Mapping for Physics Learning in Junior High School

    Science.gov (United States)

    Chang, Cheng-Chieh; Yeh, Ting-Kuang; Shih, Chang-Ming

    2016-01-01

    It generally is accepted that concept mapping has a noticeable impact on learning. But literatures show the use of concept mapping is not benefit all learners. The present study explored the effects of incorporating computer-based concept mapping in physics instruction. A total of 61 9th-grade students participated in this study. By using a…

  20. Predicting Childhood Sexual or Physical Abuse: A Logistic Regression Geo-mapping Approach to Prevention

    OpenAIRE

    Tadoum, Roland K.; Smolij, Kamila; Lyn, Michelle A.; Johnson, Craig W.

    2005-01-01

    This study investigates the degree to which gender, ethnicity, relationship to perpetrator, and geo-mapped socio-economic factors significantly predict the incidence of childhood sexual abuse, physical abuse and non- abuse. These variables are then linked to geographic identifiers using geographic information system (GIS) technology to develop a geo-mapping framework for child sexual and physical abuse prevention.

  1. Physical Webbing: Collaborative Kinesthetic Three-Dimensional Mind Maps[R

    Science.gov (United States)

    Williams, Marian H.

    2012-01-01

    Mind Mapping has predominantly been used by individuals or collaboratively in groups as a paper-based or computer-generated learning strategy. In an effort to make Mind Mapping kinesthetic, collaborative, and three-dimensional, an innovative pedagogical strategy, termed Physical Webbing, was devised. In the Physical Web activity, groups…

  2. Physically-Based Shallow Landslide Susceptibility Mapping, NW of Portugal

    Science.gov (United States)

    Teixeira, Manuel; Bateira, Carlos; Soares, Laura

    2013-04-01

    Two physically-based models - Shallow Landslide Stability Analysis (SHALSTAB) and Safety Factor (SF) - are applied in Serra da Peneda (northwest of Portugal) to evaluate shallow landslide susceptibility in Tibo drainage basin. This small basin is located in an area of granitic and metasedimentary substrate, covered by different types of surficial formations (weathering mantles and slope deposits). The application of the selected models requires the determination of a set of mechanical and hydrological parameters, and the use of high resolution topographic information to create an accurate DTM. To fulfill this goal we have applied the Shallow Landslide Stability Analysis (SHALSTAB) and the SF (Safety Factor) models. The shallow landslide area was inventoried on the field. The cohesion was assessed by back analysis and the other mechanical and hydrological soil parameters were assessed on the field survey. Several susceptibility scenarios were tested with SHALSTAB model. The best SHALSTAB scenario used to assess the susceptibility is achieved using the following parameters: cohesion (c) = 2000 N/m2, soil thickness (z) = 1,2 m, internal friction (?)=32o and soil weight (?s)=14,7 KN/m3. Shallow landslide susceptibility mapping using the SF model, was based on the cartography of the factors registered on the field survey and used the following parameters: cohesion (c) = 2000 - 6000 N/m2, soil thickness (z) =1,2 m, internal friction (?)=30 - 40o; soil volumic weight (?m) = 13,7 - 15,7 KN/m3 and Hydraulic conductivity = 0 - 3,9-03 kfs. SHALSTAB scenarios were validated by overlaying the shallow landslide area (scar concentration) and selected the better susceptibility modeling. The parameters used on the SF model applied spatially variable values registered in the field survey (using the superficial formation cartography). To validate the SF model we used the AUC (Area Under the Curve) method. The two models were compared by the scar concentration and landslide potential

  3. Physical mapping in large genomes: accelerating anchoring of BAC contigs to genetic maps through in silico analysis.

    Science.gov (United States)

    Paux, Etienne; Legeai, Fabrice; Guilhot, Nicolas; Adam-Blondon, Anne-Françoise; Alaux, Michaël; Salse, Jérôme; Sourdille, Pierre; Leroy, Philippe; Feuillet, Catherine

    2008-02-01

    Anchored physical maps represent essential frameworks for map-based cloning, comparative genomics studies, and genome sequencing projects. High throughput anchoring can be achieved by polymerase chain reaction (PCR) screening of bacterial artificial chromosome (BAC) library pools with molecular markers. However, for large genomes such as wheat, the development of high dimension pools and the number of reactions that need to be performed can be extremely large making the screening laborious and costly. To improve the cost efficiency of anchoring in such large genomes, we have developed a new software named Elephant (electronic physical map anchoring tool) that combines BAC contig information generated by FingerPrinted Contig with results of BAC library pools screening to identify BAC addresses with a minimal amount of PCR reactions. Elephant was evaluated during the construction of a physical map of chromosome 3B of hexaploid wheat. Results show that a one dimensional pool screening can be sufficient to anchor a BAC contig while reducing the number of PCR by 384-fold thereby demonstrating that Elephant is an efficient and cost-effective tool to support physical mapping in large genomes. PMID:18038165

  4. A physical map of the hyperthermophilic bacterium Aquifex pyrophilus chromosome.

    OpenAIRE

    Shao, Z; Mages, W; Schmitt, R.

    1994-01-01

    A genomic map of the hyperthermophilic hydrogen-oxidizing bacterium Aquifex pyrophilus was established with NotI (GC/GGCCGC), SpeI (A/CTAGT), and XbaI (T/CTAGA). Linking clones and cross-hybridization of restriction fragments revealed a single circular chromosome of 1.6 Mbp. A single flagellin gene and six rRNA gene units were located on this map by Southern hybridization.

  5. An integrated physical map covering 25 cM of human chromosome 8

    Energy Technology Data Exchange (ETDEWEB)

    Chen, W.; Hou, J.; Wagner, M.J.; Wells, D.E. [Univ. of Houston, TX (United States)

    1996-02-15

    This article reports on an integrated physical map of human chromosome 8 using STS content analysis of somatic cell hybrids and YAC contigs. Such mapping efforts will help to localize genes linked to hereditary diseases. 17 refs., 1 fig., 1 tab.

  6. Genetic and physical mapping of two centromere-proximal regions of chromosome IV in Aspergillus nidulans

    DEFF Research Database (Denmark)

    Aleksenko, Alexei Y.; Nielsen, Michael Lynge; Clutterbuck, A.J.

    2001-01-01

    revision of the genetic map of the chromosome, including the position of the centromere, Comparison of physical and genetic maps indicates that meiotic recombination is low in subcentromeric DNA, its frequency being reduced from 1 crossover per 0.8 Mb to approximately 1 crossover per 5 Mb per meiosis...

  7. Julius Edgar Lilienfeld Prize Lecture: Mapping the Universe: Physics Writ Large

    Science.gov (United States)

    Geller, Margaret

    2013-03-01

    The age of mapping the universe began in earnest in the late twentieth century. I will describe the enormous strides we have made in mapping the galaxy distribution and in understanding its nature and history. I will show how techniques for measuring the (primarily dark) matter distribuion in massive systems of galaxies are an astrophysical route to tests of fundamental physics.

  8. Genetic and physical mapping of the mouse Ulnaless locus

    OpenAIRE

    Peichel, C. L.; Abbott, C M; Vogt, T F

    1996-01-01

    The mouse Ulnaless locus is a semidominant mutation which displays defects in patterning along the proximal-distal and anterior-posterior axes of all four limbs. The first Ulnaless homozygotes have been generated, and they display a similar, though slightly more severe, limb phenotype than the heterozygotes. To create a refined genetic map of the Ulnaless region using molecular markers, four backcrosses segregating Ulnaless were established. A 0.4-cM interval containing the Ulnaless locus has...

  9. (Developing a physical map of human chromosome 22)

    Energy Technology Data Exchange (ETDEWEB)

    Simon, M.I.

    1991-01-01

    We have developed bacterial F-factor based systems for cloning large fragments of human DNA in E. coli. In addition to large size, these systems are capable of maintaining human DNA with a high degree of stability. The cosmid size clones are called Fosmids and the clones containing larger inserts (100--200 kb) are called bacterial artificial chromosomes (BACs). The ultimate test of the effectiveness of cloning and mapping technology is the degree to which it can be efficiently applied to solve complex mapping problems. We, therefore, plan to use the large fragment cloning procedure as well as a variety of other approaches to generate a complete map of overlapping clones corresponding to human chromosome 22. We have thus far prepared two human chromosome 22 specific Fosmid libraries and we are in the process of constructing a chromosome 22 specific BAC library composed of fragments larger than 100 kb. We will further optimize the technology so that libraries of fragments larger than 200 kb can be readily prepared.

  10. [Developing a physical map of human chromosome 22]. Progress report

    Energy Technology Data Exchange (ETDEWEB)

    Simon, M.I.

    1991-12-31

    We have developed bacterial F-factor based systems for cloning large fragments of human DNA in E. coli. In addition to large size, these systems are capable of maintaining human DNA with a high degree of stability. The cosmid size clones are called Fosmids and the clones containing larger inserts (100--200 kb) are called bacterial artificial chromosomes (BACs). The ultimate test of the effectiveness of cloning and mapping technology is the degree to which it can be efficiently applied to solve complex mapping problems. We, therefore, plan to use the large fragment cloning procedure as well as a variety of other approaches to generate a complete map of overlapping clones corresponding to human chromosome 22. We have thus far prepared two human chromosome 22 specific Fosmid libraries and we are in the process of constructing a chromosome 22 specific BAC library composed of fragments larger than 100 kb. We will further optimize the technology so that libraries of fragments larger than 200 kb can be readily prepared.

  11. Generation of physical map contig-specific sequences useful for whole genome sequence scaffolding.

    Directory of Open Access Journals (Sweden)

    Yanliang Jiang

    Full Text Available Along with the rapid advances of the nextgen sequencing technologies, more and more species are added to the list of organisms whose whole genomes are sequenced. However, the assembled draft genome of many organisms consists of numerous small contigs, due to the short length of the reads generated by nextgen sequencing platforms. In order to improve the assembly and bring the genome contigs together, more genome resources are needed. In this study, we developed a strategy to generate a valuable genome resource, physical map contig-specific sequences, which are randomly distributed genome sequences in each physical contig. Two-dimensional tagging method was used to create specific tags for 1,824 physical contigs, in which the cost was dramatically reduced. A total of 94,111,841 100-bp reads and 315,277 assembled contigs are identified containing physical map contig-specific tags. The physical map contig-specific sequences along with the currently available BAC end sequences were then used to anchor the catfish draft genome contigs. A total of 156,457 genome contigs (~79% of whole genome sequencing assembly were anchored and grouped into 1,824 pools, in which 16,680 unique genes were annotated. The physical map contig-specific sequences are valuable resources to link physical map, genetic linkage map and draft whole genome sequences, consequently have the capability to improve the whole genome sequences assembly and scaffolding, and improve the genome-wide comparative analysis as well. The strategy developed in this study could also be adopted in other species whose whole genome assembly is still facing a challenge.

  12. A physically based criterion for hydraulic hazard mapping

    Science.gov (United States)

    Milanesi, Luca; Pilotti, Marco; Petrucci, Olga

    2013-04-01

    Hydraulic hazard maps are widely used for land use and emergency planning. Due to their practical consequences, it is important that their meaning is effectively transferred and shared by the stakeholders; to this purpose maps should communicate hazard levels moving from the potential consequences on specified targets. For these reasons flood maps showing only the extension of the inundated areas or flow features as depth and/or velocity may reveal themselves as ineffective instruments. The selection of the specific target to analyse must, in our opinion, be site-specific and reflect land use and/or the hydraulics features of the phenomenon. In case of sudden processes, such as torrential floods or debris flows, hazard levels should be referred to human life, because emergency plans may not mitigate risk; on the contrary, when the time scale of the flood wave propagation is sufficiently larger than the warning system one, the focus might move to the economic value of properties, since human-focused criteria may result in too severe land planning restrictions. This contribution starts exploring, from a theoretical point of view, human hazard levels as drowning, toppling and friction stability limits, which are the main failure mechanisms of human stability in flows. The proposed approach considers the human body, set on a slope and hit by a current of known density, as a combination of cylinders with different dimensions. The drowning threshold is identified through a limiting water depth, while toppling and translation are studied respectively through a moment and momentum balance. The involved forces are the friction at the bottom, the destabilizing drag force exerted by the current, the human weight and buoyancy. Several threshold curves on the velocity-depth plane can be identified as a function of different masses and heights for children and adults. Because of its dependence from the fluid density, this methodology may be applied also to define hazard

  13. Construction of an electronic physical map of Magnaporthe oryzae using genomic position-ready SSR markers

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    Magnaporthe oryzae is a model for plant pathogenic filamentous fungi. We have assembled a simple sequence repeat (SSR)-based physical map of the species, using in silico sequence data. A set of 120 SSR markers was developed from the genomic sequence of the reference isolate 70-15. These markers were readily amplified from the genomic DNA of other isolates, and high levels of allelic variation characterised the parental isolates of the two crosses tested. All the markers were locatable to one of the seven M. oryzae chromosomes. An SSR-based physical in silico map was constructed, and pre-existing SSR and RFLP loci were integrated into the map, along with 23 Avr (avirulence) genes and two other genes of importance to the plant/pathogen interaction. This map provides a platform for population genetics and functional genomics studies in the model pathogen, and even in other evolutionally related pathogens.

  14. Physical Map and Organization of Chromosome 7 in the Rice Blast Fungus, Magnaporthe grisea

    OpenAIRE

    Zhu, Heng; Blackmon, Barbara P.; Sasinowski, Maciek; Dean, Ralph A.

    1999-01-01

    The rice blast fungus Magnaporthe grisea is a highly destructive plant pathogen and one of the most important for studying various aspects of host-plant interactions. It has been widely adopted as a model organism because it is ideally suited for genetic and biological studies. To facilitate map-based cloning, chromosome walking, and genome organization studies of M. grisea, a complete physical map of chromosome 7 was constructed using a large-insert (130 kb) bacterial artificial chromosome (...

  15. Mapping the Physical Properties of Cosmic Hot Gas with Hyper-spectral Imaging

    CERN Document Server

    O'Dwyer, M; Raychaudhuri, S; Dwyer, Mark O'; Ponman, Trevor; Raychaudhury, Ela Claridge & Somak

    2005-01-01

    A novel inversion technique is proposed to compute parametric maps showing the temperature, density and chemical composition of cosmic hot gas from X-ray hyper-spectral images. The parameters are recovered by constructing a unique non-linear mapping derived by combining a physics-based modelling of the X-ray spectrum with the selection of optimal bandpass filters. Preliminary results and analysis are presented.

  16. Linkage mapping bovine EST-based SNP

    Directory of Open Access Journals (Sweden)

    Bennett Gary L

    2005-05-01

    Full Text Available Abstract Background Existing linkage maps of the bovine genome primarily contain anonymous microsatellite markers. These maps have proved valuable for mapping quantitative trait loci (QTL to broad regions of the genome, but more closely spaced markers are needed to fine-map QTL, and markers associated with genes and annotated sequence are needed to identify genes and sequence variation that may explain QTL. Results Bovine expressed sequence tag (EST and bacterial artificial chromosome (BACsequence data were used to develop 918 single nucleotide polymorphism (SNP markers to map genes on the bovine linkage map. DNA of sires from the MARC reference population was used to detect SNPs, and progeny and mates of heterozygous sires were genotyped. Chromosome assignments for 861 SNPs were determined by twopoint analysis, and positions for 735 SNPs were established by multipoint analyses. Linkage maps of bovine autosomes with these SNPs represent 4585 markers in 2475 positions spanning 3058 cM . Markers include 3612 microsatellites, 913 SNPs and 60 other markers. Mean separation between marker positions is 1.2 cM. New SNP markers appear in 511 positions, with mean separation of 4.7 cM. Multi-allelic markers, mostly microsatellites, had a mean (maximum of 216 (366 informative meioses, and a mean 3-lod confidence interval of 3.6 cM Bi-allelic markers, including SNP and other marker types, had a mean (maximum of 55 (191 informative meioses, and were placed within a mean 8.5 cM 3-lod confidence interval. Homologous human sequences were identified for 1159 markers, including 582 newly developed and mapped SNP. Conclusion Addition of these EST- and BAC-based SNPs to the bovine linkage map not only increases marker density, but provides connections to gene-rich physical maps, including annotated human sequence. The map provides a resource for fine-mapping quantitative trait loci and identification of positional candidate genes, and can be integrated with other

  17. 3-D or median map? Earthquake scenario ground-motion maps from physics-based models versus maps from ground-motion prediction equations

    Science.gov (United States)

    Porter, K.

    2015-12-01

    There are two common ways to create a ground-motion map for a hypothetical earthquake: using ground motion prediction equations (by far the more common of the two) and using 3-D physics-based modeling. The former is very familiar to engineers, the latter much less so, and the difference can present a problem because engineers tend to trust the familiar and distrust novelty. Maps for essentially the same hypothetical earthquake using the two different methods can look very different, while appearing to present the same information. Using one or the other can lead an engineer or disaster planner to very different estimates of damage and risk. The reasons have to do with depiction of variability, spatial correlation of shaking, the skewed distribution of real-world shaking, and the upward-curving relationship between shaking and damage. The scientists who develop the two kinds of map tend to specialize in one or the other and seem to defend their turf, which can aggravate the problem of clearly communicating with engineers.The USGS Science Application for Risk Reduction's (SAFRR) HayWired scenario has addressed the challenge of explaining to engineers the differences between the two maps, and why, in a disaster planning scenario, one might want to use the less-familiar 3-D map.

  18. Mental and Physical (MAP) Training: A Neurogenesis-Inspired Intervention that Enhances Health in Humans

    OpenAIRE

    Shors, Tracey J.; Olson, Ryan L.; Bates, Marsha E.; Selby, Edward A.; Alderman, Brandon L.

    2014-01-01

    New neurons are generated in the hippocampus each day and their survival is greatly enhanced through effortful learning (Shors, 2014). The numbers of cells produced can be increased by physical exercise (van Praag et al., 1999). These findings inspired us to develop a clinical intervention for humans known as Mental and Physical Training, or MAP Training. Each session consists of 30 min of mental training with focused attention meditation (20 minutes sitting and 10 minutes walking). Meditatio...

  19. Physical Activity, Physical Fitness and Academic Achievement in Adolescents: A Self-Organizing Maps Approach

    Science.gov (United States)

    Pellicer-Chenoll, Maite; Garcia-Massó, Xavier; Morales, Jose; Serra-Añó, Pilar; Solana-Tramunt, Mònica; González, Luis-Millán; Toca-Herrera, José-Luis

    2015-01-01

    The relationship among physical activity, physical fitness and academic achievement in adolescents has been widely studied; however, controversy concerning this topic persists. The methods used thus far to analyse the relationship between these variables have included mostly traditional lineal analysis according to the available literature. The…

  20. Mapping the physical location of Telecenter using the geospatial information systems: A requirement of spatial digital mapping

    Science.gov (United States)

    Bohari, Abdul Manaf; Hin, Cheng Wei; Fuad, Nurwahida

    2016-08-01

    Recently, a study of Telecenter lifetime value is vital to academician, government and non-profit organization where Telecenter has great contribute to the nation development of rural community. Telecenter as important location of enhance the relationship of socio-economic, where placed all non-profit activity into single location platform. Consistently, previous studies mentioned Telecenter have significance contribution toward the nation, however, research and knowledge still lacking regarding the location factors that affecting the Telecenter specifically on spatial aspects of physical location environment. This research aimed to understand the requirement of spatial digital mapping the physical location of Telecenter, according to location of user and it environment, by using the geospatial information systems references, as called grid coordinate systems. The suggestion and implications of this study are briefly explored where spatial location factor plays important role in determine the lifetime value of Telecenter.

  1. Homotopic mapping solitary traveling wave solutions for the disturbed BKK mechanism physical model

    International Nuclear Information System (INIS)

    Using the trial equation method, a Broer—Kau—Kupershmidt (BKK) mechanism physical model is obtained, and the exact and approximate solitary traveling wave solutions are found. As an example, it is pointed out that the solitary traveling wave approximate solutions have better accurate degree by using the homotopic mapping theory. (general)

  2. A hybrid BAC physical map of potato: a framework for sequencing a heterozygous genome

    NARCIS (Netherlands)

    Boer, de J.M.; Borm, T.J.A.; Jesse, T.; Brugmans, B.W.; Tang, X.; Bryan, G.J.; Bakker, J.; Eck, van H.J.; Visser, R.G.F.

    2011-01-01

    Background Potato is the world's third most important food crop, yet cultivar improvement and genomic research in general remain difficult because of the heterozygous and tetraploid nature of its genome. The development of physical map resources that can facilitate genomic analyses in potato has so

  3. Physical Map and Genome Sequencing Survey of Mycoplasma haemofelis (Haemobartonella felis)

    OpenAIRE

    Berent, Linda M.; Joanne B. Messick

    2003-01-01

    Mycoplasma haemofelis is an uncultivable red-cell pathogen of cats. Isolated M. haemofelis DNA was used to create a bacterial artificial chromosome library and physical map. Random sequencing of this material revealed 75 genes that had not been previously reported for M. haemofelis or any other hemotrophic mycoplasma.

  4. Meeting the Demands of Professional Education: A Study of Mind Mapping in a Professional Doctoral Physical Therapy Education Program

    Science.gov (United States)

    Pollard, Elicia L.

    2010-01-01

    The purposes of this study are to investigate whether the quiz scores of physical therapy students who integrated mind mapping in their learning strategies are significantly different than the quiz scores of students who did not use mind mapping to learn in a lecture-based research course and examine the students' perceptions of mind mapping as a…

  5. A branch-and-cut approach to physical mapping of chromosomes by unique end-probes.

    Science.gov (United States)

    Christof, T; Jünger, M; Kececioglu, J; Mutzel, P; Reinelt, G

    1997-01-01

    A fundamental problem in computational biology is the construction of physical maps of chromosomes from hybridization experiments between unique probes and clones of chromosome fragments in the presence of error. Alizadeh, Karp, Weisser and Zweig (Algorithmica 13:1/2, 52-76, 1995) first considered a maximum-likelihood model of the problem that is equivalent to finding an ordering of the probes that minimizes a weighted sum of errors and developed several effective heuristics. We show that by exploiting information about the end-probes of clones, this model can be formulated as a Weighted Betweenness Problem. This affords the significant advantage of allowing the well-developed tools of integer linear-programming and branch-and-cut algorithms to be brought to bear on physical mapping, enabling us for the first time to solve small mapping instances to optimality even in the presence of high error. We also show that by combining the optimal solution of many small overlapping Betweenness Problems, one can effectively screen errors from larger instances and solve the edited instance to optimality as a Hamming-Distance Traveling Salesman Problem. This suggests a new approach, a Betweenness-Traveling Salesman hybrid, for constructing physical maps.

  6. A draft physical map of a D-genome cotton species (Gossypium raimondii

    Directory of Open Access Journals (Sweden)

    Kudrna Dave

    2010-06-01

    Full Text Available Abstract Background Genetically anchored physical maps of large eukaryotic genomes have proven useful both for their intrinsic merit and as an adjunct to genome sequencing. Cultivated tetraploid cottons, Gossypium hirsutum and G. barbadense, share a common ancestor formed by a merger of the A and D genomes about 1-2 million years ago. Toward the long-term goal of characterizing the spectrum of diversity among cotton genomes, the worldwide cotton community has prioritized the D genome progenitor Gossypium raimondii for complete sequencing. Results A whole genome physical map of G. raimondii, the putative D genome ancestral species of tetraploid cottons was assembled, integrating genetically-anchored overgo hybridization probes, agarose based fingerprints and 'high information content fingerprinting' (HICF. A total of 13,662 BAC-end sequences and 2,828 DNA probes were used in genetically anchoring 1585 contigs to a cotton consensus genetic map, and 370 and 438 contigs, respectively to Arabidopsis thaliana (AT and Vitis vinifera (VV whole genome sequences. Conclusion Several lines of evidence suggest that the G. raimondii genome is comprised of two qualitatively different components. Much of the gene rich component is aligned to the Arabidopsis and Vitis vinifera genomes and shows promise for utilizing translational genomic approaches in understanding this important genome and its resident genes. The integrated genetic-physical map is of value both in assembling and validating a planned reference sequence.

  7. A branch-and-cut approach to physical mapping with end-probes

    Energy Technology Data Exchange (ETDEWEB)

    Christof, T.; Reinelt, G. [Universitaet Heidelberg (Germany); Juenger, M. [Universitaet zu Koeln (Germany)] [and others

    1997-12-01

    A fundamental problem in computational biology is the construction of physical maps of chromosomes from hybridization experiments between unique probes and clones of chromosome fragments in the presence of error. Alizadeh, Karp, Weisser and Zweig [AKWZ94] first considered a maximum-likelihood model of the problem that is equivalent to finding an ordering of the probes that minimizes a weighted sum of errors, and developed several effective heuristics. We show that by exploiting information about the end-probes of clones, this model can be formulated as a weighted Betweenness Problem. This affords the significant advantage of allowing the well-developed tools of integer linear-programming and branch-and-cut algorithms to be brought to bear on physical mapping, enabling us for the first time to solve small mapping instances to optimality even in the presence of high error. We also show that by combining the optimal solution of many small overlapping Betweenness Problems, one can effectively screen errors from larger instances, and solve the edited instance to optimality as a Hamming-Distance Traveling Salesman Problem. This suggests a new combined approach to physical map construction. 18 refs., 13 figs.

  8. GRAD-MAP: A Joint Physics and Astronomy Diversity Initiative at the University of Maryland

    Science.gov (United States)

    Wilkins, Ashlee N.; Jameson, Katherine; Taylor, Corbin James; Anderson, Neil; Megson, Peter; Roberg-Clark, Gareth; Sheppard, Kyle; Uher, Tim; Hammer, Donna; Vogel, Stuart N.

    2016-01-01

    Graduate Resources for Advancing Diversity with Maryland's Astronomy and Physics (GRAD-MAP), builds connections between UMD and mid-Atlantic HBCUs, Minority-Serving Institutions, and community colleges, and uses seminars, forums, and workshops to foster a diverse community of undergraduates prepared to succeed in graduate school, and is now in its third year. GRAD-MAP launched with a three-pronged approach: 1) Collaborative Seminars, 2) A Winter Workshop, and 3) A Spring Symposium. This program allows GRAD-MAP to do more than just increase the numbers of minority students participating in astronomy and physics research (or, worse, simply shuffle around students who already are or would be); it is committed to identifying students who are otherwise underserved or overlooked by the traditional academic pipeline, not only to get them on the path to be successful undergraduate researchers and eventual graduate applicants, but also to make the climate of academic physics and astronomy more inclusive to them and all other underrepresented minority students. Our poster describes the key elements of our program, and highlights successes and lessons learned; GRAD-MAP can serve as a model for other universities committed to diversity and inclusion.

  9. Linear chromosomal physical and genetic map of Borrelia burgdorferi, the Lyme disease agent.

    Science.gov (United States)

    Casjens, S; Huang, W M

    1993-05-01

    A physical map of the 952 kbp chromosome of Borrelia burgdorferi Sh-2-82 has been constructed. Eighty-three intervals on the chromosome, defined by the cleavage sites of 15 restriction enzymes, are delineated. The intervals vary in size from 96 kbp to a few hundred bp, with an average size of 11.5 kbp. A striking feature of the map is its linearity; no other bacterial groups are known to have linear chromosomes. The two ends of the chromosome do not hybridize with one another, indicating that there are no large common terminal regions. The chromosome of this strain was found to be stable in culture; passage 6, 165 and 320 cultures have identical chromosomal restriction maps. We have positioned all previously known Borrelia burgdorferi chromosomal genes and several newly identified ones on this map. These include the gyrA/gyrB/dnaA/dnaN gene cluster, the rRNA gene cluster, fla, flgE, groEL (hsp60), recA, the rho/hip cluster, the dnaK (hsp70)/dnaJ/grpE cluster, the pheT/pheS cluster, and the genes which encode the potent immunogen proteins p22A, p39 and p83. Our electrophoretic analysis detects five linear and at least two circular plasmids in B. burgdorferi Sh-2-82. We have constructed a physical map of the 53 kbp linear plasmid and located the operon that encodes the two major outer surface proteins ospA and ospB on this plasmid. Because of the absence of functional genetic tools for this organism, these maps will serve as a basis for future mapping, cloning and sequencing studies of B. burgdorferi.

  10. Physical Mapping Technologies for the Identification and Characterization of Mutated Genes to Crop Quality

    International Nuclear Information System (INIS)

    The improvement of quality traits in food and industrial crops is an important breeding objective for both developed and developing countries in order to add value to the crop and thereby increasing farmers' income. It has been well established that the application of mutagens can be a very important approach for manipulating many crop characteristics including quality. While mutation induction using nuclear techniques such as gamma irradiation is a power tool in generating new genotypes with favourable alleles for improving crop quality in plant breeding, a more thorough understanding of gene expression, gene interactions, and physical location will improve ability to manipulate and control genes, and directly lead to crop improvement. Physical mapping technologies, molecular markers and molecular cytogenetic techniques are tools available with the potential to enhance the ability to tag genes and gene complexes to facilitate the selection of desirable genotypes in breeding programmes, including those based on mutation breeding. This Coordinated Research Project (CRP) on 'Physical Mapping Technologies for the Identification and Characterization of Mutated Genes Contributing to Crop Quality' was conducted under the overall IAEA project objective of 'Identification, Characterization and Transfer of Mutated Genes'. The specific objectives of the CRP were to assist Member States in accelerating crop breeding programmes through the application of physical mapping and complementary genomic approaches, and the characterization and utilization of induced mutants for improvement of crop quality. The IAEA-TECDOC describes the success obtained in the application of molecular cytology, molecular markers, physical mapping and mutation technologies since the inception of the CRP in 2003. The CRP also resulted in two book chapters, 35 peer reviewed papers, 25 conference proceedings, one PhD thesis, and 22 published abstracts. In addition, thirteen sequences were submitted to the

  11. Automated integration of genomic physical mapping data via parallel simulated annealing

    Energy Technology Data Exchange (ETDEWEB)

    Slezak, T.

    1994-06-01

    The Human Genome Center at the Lawrence Livermore National Laboratory (LLNL) is nearing closure on a high-resolution physical map of human chromosome 19. We have build automated tools to assemble 15,000 fingerprinted cosmid clones into 800 contigs with minimal spanning paths identified. These islands are being ordered, oriented, and spanned by a variety of other techniques including: Fluorescence Insitu Hybridization (FISH) at 3 levels of resolution, ECO restriction fragment mapping across all contigs, and a multitude of different hybridization and PCR techniques to link cosmid, YAC, AC, PAC, and Pl clones. The FISH data provide us with partial order and distance data as well as orientation. We made the observation that map builders need a much rougher presentation of data than do map readers; the former wish to see raw data since these can expose errors or interesting biology. We further noted that by ignoring our length and distance data we could simplify our problem into one that could be readily attacked with optimization techniques. The data integration problem could then be seen as an M x N ordering of our N cosmid clones which ``intersect`` M larger objects by defining ``intersection`` to mean either contig/map membership or hybridization results. Clearly, the goal of making an integrated map is now to rearrange the N cosmid clone ``columns`` such that the number of gaps on the object ``rows`` are minimized. Our FISH partially-ordered cosmid clones provide us with a set of constraints that cannot be violated by the rearrangement process. We solved the optimization problem via simulated annealing performed on a network of 40+ Unix machines in parallel, using a server/client model built on explicit socket calls. For current maps we can create a map in about 4 hours on the parallel net versus 4+ days on a single workstation. Our biologists are now using this software on a daily basis to guide their efforts toward final closure.

  12. Integration of 28 STSs into the physical map of human chromosome 18

    Energy Technology Data Exchange (ETDEWEB)

    Gerken, S.; White, R.; Bradley, P. [Univ. of Utah, Salt Lake City, UT (United States)] [and others

    1994-12-01

    Genes on human chromosome 18 are associated with familial glucocorticoid deficiency (MC2R), pemphigus vulgaris (DSG3) and foliaceus (DSG1), familial amyloidosis (TTR), colorectal carcinoma (DCC), erythropoietic protoporphyria (FECH), follicular lymphoma (BCL2, FVT1), and congenital methemoglobinemia (CYB5). As the resolution of human genetic maps improves, linkage between other diseases and specific regions of chromosome 18 will occur. A physical map of human chromosome 18 will prove useful in identifying candidate genes that are associated with these disorders. Using various physical and genetic mapping techniques, over 35 genes and 19 expressed sequence tags (ESTs) are assigned to human chromosome 18. Most of these genes and several of the ESTs were sublocalized using a well-defined panel of somatic cell hybrids that contain different segments of human chromosome 18. Despite recent efforts, progress in mapping human chromosome 18 has lagged behind that achieved for other chromosomes. Thus, the purpose of this study was to integrate 9 new transcriptional tags [8 brain ESTs (8) and the melanocortin 4 receptor (MC4R) (3)] and 19 simple sequence repeats (SSRs) into the physical map of human chromosome 18. The SSRs were isolated by screening genomic DNA libraries constructed in M13mp18 vectors with oligonucleotide probes that detected dinucleotide d(CA)- and tetranucleotide-repeat motifs. DNA sequences of clones that contained microsatellite repeats were obtained by thermal-cycle sequencing, and STSs were developed from clones that contained numerous repeats. STSs that identified highly polymorphic loci in eight unrelated CEPH parents were used for genotyping. Results of linkage analyses and estimates of heterozygosity for these markers will be reported. 9 refs., 1 fig., 1 tab.

  13. A database system for constructing, integrating, and displaying physical maps of chromosome 19

    Energy Technology Data Exchange (ETDEWEB)

    Slezak, T.; Wagner, M.; Yeh, Mimi; Ashworth, L.; Nelson, D.; Ow, D.; Branscomb, E.; Carrano, A.

    1994-06-01

    Efforts are underway at numerous sites around the world to construct physical maps of all human chromosomes. These maps will enable researchers to locate, characterize, and eventually understand the genes that control human structure and function. Accomplishing this goal will require a staggering amount of innovation and advancement of biological technology. The volume and complexity of the data already generated requires a sophisticated array of computational support to collect, store, analyze, integrate, and display it in biologically meaningful ways. The Human Genome Center at Livermore has spent the last 6 years constructing a database system to support its physical mapping efforts on human chromosome 19. Our computational support team is composed of experienced computer professionals who share a common pragmatic primary goal of rapidly supplying tools that meet the ever-changing needs of the biologists. Most papers describing computational support of genome research concentrate on mathematical details of key algorithms. However, in this paper we would like to concentrate on the design issues, tradeoffs, and consequences from the point of view of building a complex database system to support leading-edge genomic research. We introduce the topic of physical mapping, discuss the key design issues involved in our databases, and discuss the use of this data by our major tools (DNA fingerprint analysis and overlap computation, contig assembly, map integration, and database browsing.) Given the advantage of hindsight, we discuss what worked, what didn`t, and how we will evolve from here. As early pioneers in this field we hope that our experience may prove useful to others who are now beginning to design and construct similar systems.

  14. Genetic and physical mapping of the genomic region spanning CMT4A

    Energy Technology Data Exchange (ETDEWEB)

    Othmane, K.B.; Loeb, D.; Roses, A.D. [Duke Univ. Medical Center, Durham, NC (United States)] [and others

    1994-09-01

    Autosomal recessive Charcot-Marie-Tooth disease (CMT4) is a severe childhood neuropathy classified into three types: A, B, and C. We previously mapped CMT4A to chromosome 8q13-q21 in four large Tunisian families. Analysis of recombination events suggested the order: cent.-D8S279-(D8S286,D8S164, CMT4A)-D8S84-tel. Families with types B and C were subsequently typed and linkage for these types was excluded for the CMT4A region and other known CMT loci. Recently, the gene for a major peripheral myelin protein (PMP2) was mapped by FISH to chromosome 8q21-q22 and therefore appeared to be a strong candidate gene for CMT4A. We used SSCP analysis, DNA sequencing, FISH and YAC mapping analysis, and demonstrated that PMP2 is not the defect in CMT4A. Using physical mapping data, we sublocalized a new genethon marker (D8S548) to the CMT4A region between D8S286 and D8S164. All affected CMT4A patients were homozygotes for this polymorphic microsatellite as expected from its physical localization. We screened the CEPH megabase YAC library using the closest markers; over 30 YACs were isolated and characterized by PFGE. FISH analysis revealed about 16% chimeras. The YACs span the 8 cM region between D8S279 and PMP2 (mapped distal to D8S84), with a current 1 cM gap between D8S164 and D8S84. We are currently using Alu-PCR and vectorette to develop end clones in order to identify new YACs in the region and further close this gap. Alu-PCR fragments have identified several new microsatellites in the region which can be used for additional mapping of the CMT4A gene.

  15. Integrated genome sequence and linkage map of physic nut (Jatropha curcas L.), a biodiesel plant.

    Science.gov (United States)

    Wu, Pingzhi; Zhou, Changpin; Cheng, Shifeng; Wu, Zhenying; Lu, Wenjia; Han, Jinli; Chen, Yanbo; Chen, Yan; Ni, Peixiang; Wang, Ying; Xu, Xun; Huang, Ying; Song, Chi; Wang, Zhiwen; Shi, Nan; Zhang, Xudong; Fang, Xiaohua; Yang, Qing; Jiang, Huawu; Chen, Yaping; Li, Meiru; Wang, Ying; Chen, Fan; Wang, Jun; Wu, Guojiang

    2015-03-01

    The family Euphorbiaceae includes some of the most efficient biomass accumulators. Whole genome sequencing and the development of genetic maps of these species are important components in molecular breeding and genetic improvement. Here we report the draft genome of physic nut (Jatropha curcas L.), a biodiesel plant. The assembled genome has a total length of 320.5 Mbp and contains 27,172 putative protein-coding genes. We established a linkage map containing 1208 markers and anchored the genome assembly (81.7%) to this map to produce 11 pseudochromosomes. After gene family clustering, 15,268 families were identified, of which 13,887 existed in the castor bean genome. Analysis of the genome highlighted specific expansion and contraction of a number of gene families during the evolution of this species, including the ribosome-inactivating proteins and oil biosynthesis pathway enzymes. The genomic sequence and linkage map provide a valuable resource not only for fundamental and applied research on physic nut but also for evolutionary and comparative genomics analysis, particularly in the Euphorbiaceae. PMID:25603894

  16. A Systematic Review of Mapping Strategies for the Sonification of Physical Quantities

    Science.gov (United States)

    Dubus, Gaël; Bresin, Roberto

    2013-01-01

    The field of sonification has progressed greatly over the past twenty years and currently constitutes an established area of research. This article aims at exploiting and organizing the knowledge accumulated in previous experimental studies to build a foundation for future sonification works. A systematic review of these studies may reveal trends in sonification design, and therefore support the development of design guidelines. To this end, we have reviewed and analyzed 179 scientific publications related to sonification of physical quantities. Using a bottom-up approach, we set up a list of conceptual dimensions belonging to both physical and auditory domains. Mappings used in the reviewed works were identified, forming a database of 495 entries. Frequency of use was analyzed among these conceptual dimensions as well as higher-level categories. Results confirm two hypotheses formulated in a preliminary study: pitch is by far the most used auditory dimension in sonification applications, and spatial auditory dimensions are almost exclusively used to sonify kinematic quantities. To detect successful as well as unsuccessful sonification strategies, assessment of mapping efficiency conducted in the reviewed works was considered. Results show that a proper evaluation of sonification mappings is performed only in a marginal proportion of publications. Additional aspects of the publication database were investigated: historical distribution of sonification works is presented, projects are classified according to their primary function, and the sonic material used in the auditory display is discussed. Finally, a mapping-based approach for characterizing sonification is proposed. PMID:24358192

  17. Toward a physical map of the genome of the nematode Caenorhabditis elegans

    Energy Technology Data Exchange (ETDEWEB)

    Coulson, A.; Sulston, J.; Brenner, S.; Karn, J.

    1986-10-01

    A technique for digital characterization and comparison of DNA fragments, using restriction enzymes, is described. The technique is being applied to fragments from the nematode Caenorhabditis elegans (i) to facilitate cross-indexing of clones emanating from different laboratories and (ii) to construct a physical map of the genome. Eight hundred sixty clusters of clones, from 35 to 350 kilobases long and totaling about 60% of the genome, have been characterized.

  18. The Riccati Equation Mapping Method for Solving Nonlinear Partial Differential Equations in Mathematical Physics

    Directory of Open Access Journals (Sweden)

    Elsayed Mohamed Elsayed ZAYED

    2014-07-01

    Full Text Available In this article, many new exact solutions of the (2+1-dimensional nonlinear Boussinesq-Kadomtsev-Petviashvili equation and the (1+1-dimensional nonlinear heat conduction equation are constructed using the Riccati equation mapping method. By means of this method, many new exact solutions are successfully obtained. This method can be applied to many other nonlinear evolution equations in mathematical physics.doi:10.14456/WJST.2014.14

  19. Development of the BAC Physical Maps of Wheat Chromosome 6B for Its Genomic Sequencing

    OpenAIRE

    Kobayashi, A.; Katagiri, S.; Karasawa, W.; Takumi, S.; Doležel, J. (Jaroslav); Ogihara, Y.; Handa, H.

    2015-01-01

    For a purpose of better understanding the genome structure of wheat and accelerating the development of DNA markers for gene isolations and breeding, the Japanese research group, as a member of The International Wheat Genome Sequencing Consortium, is now conducting the physical mapping and genomic sequencing of wheat chromosome 6B of ‘Chinese Spring’ (CS). BAC libraries were constructed respectively using the short and long arm-specific DNAs extracted from the flow-sorted chromosome 6BS and 6...

  20. A physical map of Brassica oleracea shows complexity of chromosomal changes following recursive paleopolyploidizations

    Directory of Open Access Journals (Sweden)

    Giattina Emily

    2011-09-01

    Full Text Available Abstract Background Evolution of the Brassica species has been recursively affected by polyploidy events, and comparison to their relative, Arabidopsis thaliana, provides means to explore their genomic complexity. Results A genome-wide physical map of a rapid-cycling strain of B. oleracea was constructed by integrating high-information-content fingerprinting (HICF of Bacterial Artificial Chromosome (BAC clones with hybridization to sequence-tagged probes. Using 2907 contigs of two or more BACs, we performed several lines of comparative genomic analysis. Interspecific DNA synteny is much better preserved in euchromatin than heterochromatin, showing the qualitative difference in evolution of these respective genomic domains. About 67% of contigs can be aligned to the Arabidopsis genome, with 96.5% corresponding to euchromatic regions, and 3.5% (shown to contain repetitive sequences to pericentromeric regions. Overgo probe hybridization data showed that contigs aligned to Arabidopsis euchromatin contain ~80% of low-copy-number genes, while genes with high copy number are much more frequently associated with pericentromeric regions. We identified 39 interchromosomal breakpoints during the diversification of B. oleracea and Arabidopsis thaliana, a relatively high level of genomic change since their divergence. Comparison of the B. oleracea physical map with Arabidopsis and other available eudicot genomes showed appreciable 'shadowing' produced by more ancient polyploidies, resulting in a web of relatedness among contigs which increased genomic complexity. Conclusions A high-resolution genetically-anchored physical map sheds light on Brassica genome organization and advances positional cloning of specific genes, and may help to validate genome sequence assembly and alignment to chromosomes. All the physical mapping data is freely shared at a WebFPC site (http://lulu.pgml.uga.edu/fpc/WebAGCoL/brassica/WebFPC/; Temporarily password-protected: account

  1. Physical and genetic mapping of the muscle phosphofructokinase gene (PFKM): Reassignment to human chromosome 12q

    Energy Technology Data Exchange (ETDEWEB)

    Howard, T.D.; Akots, G.; Bowden, D.W. [Bowman Gray School of Medicine of Wake Forest Univ., Winston-Salem, NC (United States)

    1996-05-15

    Phosphofructokinase (PFK) is a key rate-limiting enzyme in glycolysis and represents a major control point in the metabolism of glucose. There are at least three known isoforms of PFK in humans, referred to as the muscle, platelet, and liver forms, each of which is differentially expressed in various tissues. The gene for muscle phosphofructokinase, PFKM, is mutated in Tarui disease and conceivably contributes to non-insulin-dependent diabetes mellitus (NIDDM). Based on physical and genetic mapping, we have found that the gene for PFKM does not map to chromosome 1 as previously described, but instead maps to chromosome 12. PCR analysis with a somatic cell hybrid mapping panel using primers derived from intron 6 and exon 18 of the PFKM gene showed consistent amplification of cell lines containing chromosome 12 (concordance, 100%). Fluorescence in situ hybridization analysis with CEPH YAC 762G4, isolated with exon 18 primers, indicated that this clone maps to 12q13, centromeric to the diacylglycerol kinase gene (DAGK) at 12q13.3. A highly informative genetic marker isolated from YAC 762G4 was used to map PFKM genetically between the CHLC framework markers D12S1090 and D12S390. This placement for 762G4 was significantly proximal to the recently reported locus for a third gene for maturity onset diabetes of the young (MODY). The PFKM-associated microsatellite will be a valuable tool in the evaluation of PFKM in diabetic populations as well as in linkage analysis in families with Tarui disease. 23 refs., 3 figs., 2 tabs.

  2. An AHP-derived method for mapping the physical vulnerability of coastal areas at regional scales

    Directory of Open Access Journals (Sweden)

    G. Le Cozannet

    2013-05-01

    Full Text Available Assessing coastal vulnerability to climate change at regional scales is now mandatory in France since the adoption of recent laws to support adaptation to climate change. However, there is presently no commonly recognised method to assess accurately how sea level rise will modify coastal processes in the coming decades. Therefore, many assessments of the physical component of coastal vulnerability are presently based on a combined use of data (e.g. digital elevation models, historical shoreline and coastal geomorphology datasets, simple models and expert opinion. In this study, we assess the applicability and usefulness of a multi-criteria decision-mapping method (the analytical hierarchy process, AHP to map physical coastal vulnerability to erosion and flooding in a structured way. We apply the method in two regions of France: the coastal zones of Languedoc-Roussillon (north-western Mediterranean, France and the island of La Réunion (south-western Indian Ocean, notably using the regional geological maps. As expected, the results show not only the greater vulnerability of sand spits, estuaries and low-lying areas near to coastal lagoons in both regions, but also that of a thin strip of erodible cliffs exposed to waves in La Réunion. Despite gaps in knowledge and data, the method is found to provide a flexible and transportable framework to represent and aggregate existing knowledge and to support long-term coastal zone planning through the integration of such studies into existing adaptation schemes.

  3. Comparative physical maps derived from BAC end sequences of tilapia (Oreochromis niloticus

    Directory of Open Access Journals (Sweden)

    Lindblad-Toh Kerstin

    2010-11-01

    Full Text Available Abstract Background The Nile tilapia is the second most important fish in aquaculture. It is an excellent laboratory model, and is closely related to the African lake cichlids famous for their rapid rates of speciation. A suite of genomic resources has been developed for this species, including genetic maps and ESTs. Here we analyze BAC end-sequences to develop comparative physical maps, and estimate the number of genome rearrangements, between tilapia and other model fish species. Results We obtained sequence from one or both ends of 106,259 tilapia BACs. BLAST analysis against the genome assemblies of stickleback, medaka and pufferfish allowed identification of homologies for approximately 25,000 BACs for each species. We calculate that rearrangement breakpoints between tilapia and these species occur about every 3 Mb across the genome. Analysis of 35,000 clones previously assembled into contigs by restriction fingerprints allowed identification of longer-range syntenies. Conclusions Our data suggest that chromosomal evolution in recent teleosts is dominated by alternate loss of gene duplicates, and by intra-chromosomal rearrangements (~one per million years. These physical maps are a useful resource for comparative positional cloning of traits in cichlid fishes. The paired BAC end sequences from these clones will be an important resource for scaffolding forthcoming shotgun sequence assemblies of the tilapia genome.

  4. Spectroscopic mapping of the physical properties of supernova remnant N\\,49

    CERN Document Server

    Pauletti, Diogo

    2016-01-01

    Physical conditions inside a supernova remnant can vary significantly between different positions. However, typical observational data are integrated data or contemplate specific portions of the remnant. We study the spatial variation in the physical properties of the N\\,49 supernova remnant based on a spectroscopic mapping of the whole nebula. Long-slit spectra were obtained with the slit ($\\sim4\\arcmin \\times 1.03\\arcsec$) aligned along the east-west direction from 29 different positions spaced by $2\\arcsec$ in declination. A total of 3248 1D spectra were extracted from sections of $2\\arcsec$ of the 2D spectra. More than 60 emission lines in the range 3550\\,\\AA{} to 8920\\,\\AA{} were measured in these spectra. Maps of the fluxes and of intensity ratios of these emission lines were built with a spatial resolution of $2\\arcsec \\times 2\\arcsec$. An electron density map has been obtained using the [S\\,{\\sc ii}]\\,$\\lambda6716/\\lambda6731$ line ratio. Values vary from $\\sim$500\\,cm$^{-3}$ at the northeast region t...

  5. Correlation of physical and genetic maps of human chromosome 16. Annual progress report, October 1, 1990--July 31, 1991

    Energy Technology Data Exchange (ETDEWEB)

    Sutherland, G.R.

    1991-12-31

    This project aimed to divide chromosome 16 into approximately 50 intervals of {approximately}2Mb in size by constructing a series of mouse/human somatic cell hybrids each containing a rearranged chromosome 16. Using these hybrids, DNA probes would be regionally mapped by Southern blot or PCR analysis. Preference would be given to mapping probes which demonstrated polymorphisms for which the CEPH panel of families had been typed. This would allow a correlation of the physical and linkage maps of this chromosome. The aims have been substantially achieved. 49 somatic cell hybrids have been constructed which have allowed definition of 46, and potentially 57, different physical intervals on the chromosome. 164 loci have been fully mapped into these intervals. A correlation of the physical and genetic maps of the chromosome is in an advanced stage of preparation. The somatic cell hybrids constructed have been widely distributed to groups working on chromosome 16 and other genome projects.

  6. Evidence, Theory and Context: Using intervention mapping to develop a worksite physical activity intervention

    Directory of Open Access Journals (Sweden)

    Conner Mark

    2008-09-01

    Full Text Available Abstract Background The workplace is an ideal setting for health promotion. Helping employees to be more physically active can not only improve their physical and mental health, but can also have economic benefits such as reduced sickness absence. The current paper describes the development of a three month theory-based intervention that aims to increase levels of moderate intensity physical activity amongst employees in sedentary occupations. Methods The intervention was developed using an intervention mapping protocol. The intervention was also informed by previous literature, qualitative focus groups, an expert steering group, and feedback from key contacts within a range of organisations. Results The intervention was designed to target awareness (e.g. provision of information, motivation (e.g. goal setting, social support and environment (e.g. management support and to address behavioural (e.g. increasing moderate physical activity in work and interpersonal outcomes (e.g. encourage colleagues to be more physically active. The intervention can be implemented by local facilitators without the requirement for a large investment of resources. A facilitator manual was developed which listed step by step instructions on how to implement each component along with a suggested timetable. Conclusion Although time consuming, intervention mapping was found to be a useful tool for developing a theory based intervention. The length of this process has implications for the way in which funding bodies allow for the development of interventions as part of their funding policy. The intervention will be evaluated in a cluster randomised trial involving 1350 employees from 5 different organisations, results available September 2009.

  7. BAC Library Construction and Physical Mapping of Bacillus anthracis A16R

    Institute of Scientific and Technical Information of China (English)

    Zhang Da; Zhu Houchu; Huang Liuyu

    2013-01-01

    Bacillus anthracis is an endospore-forming bacterium that causes severe inhalational anthrax, and bacillus anthracis A16R is an attenuated strain derived from Bacillus anthracis A16. The development of bacterial artificial chromosome (BAC) system has allowed the construction of large insert-size DNA libraries, and the bacterial artificial chromosomes (BACs) have become the preferred large insert cloning system for genomic analysis because such libraries are characteristically stable, high in ifdelity and easy to handle. To facilitate genome studies of this bacterium, a bacterial artiifcial chromosome library (BAC) has been established from genome DNA of Bacillus anthracis A16R. This library consisted of 9 600 clones randomly selected from more than 15 000 recombinant clones carrying inserts in the plindigoBAC-5 vectors. The mean insert size was 56 kbp, representing an approximate 12-fold genome coverage, while end sequences were obtained from 700 randomly selected clones. Sequences were compared with Bacillus anthracis Ames and Bacillus cereus ATCC 14579 Genome Project databases using the NCBI BLASTN search project. And most BLASTN results showed high identities and that the sequences’ sites could be used as STSs. To construct this physical map, Excel was used for the array of STSs and some gaps of the map were iflled up by PCR walking. Artemis-V4 was used in the construction of a genome-wide physical map with 93%genome coverage. The A16R BAC library proved to be a vital tool for the generation of a map that would not only allow the subsequent sequencing of defined areas of genome, but also provide immediate access to clones that were stable and convenient for functional genomic researches.

  8. Physical and genetic map of the Clostridium saccharobutylicum (formerly Clostridium acetobutylicum) NCP 262 chromosome.

    Science.gov (United States)

    Keis, S; Sullivan, J T; Jones, D T

    2001-07-01

    A physical and genetic map of the Clostridium saccharobutylicum NCP 262 chromosome was constructed. The order of macrorestriction fragments was determined by analysing fragments generated after single and double digestion with the restriction enzymes BssHII, I-CeuI, Sse8387I, RsrII and SfiI and separation by PFGE. The I-CeuI backbone of C. saccharobutylicum was constructed by indirect end-labelling with rrs- and 3' rrl-specific probes located on either side of the I-CeuI site in the rrn operon, and reciprocal separation of BssHII and I-CeuI digestion products by two-dimensional PFGE. The positions of BssHII fragments on the physical map were determined using a library of linking clones containing BssHII cleavage sites. The size of the circular genome was estimated to be 5.3 Mb with a mean resolution of approximately 140 kb. The chromosome of C. saccharobutylicum contains 12 rrn operons, located on 46% of the chromosome, which are transcribed divergently from the deduced origin of replication. The genetic map was constructed by determining the location of 28 genes involved in house-keeping, heat-shock response, sporulation, electron transfer and acid- and solvent-formation. Comparison of the C. saccharobutylicum genetic map with those of the spore-forming bacteria Bacillus subtilis, Clostridium acetobutylicum, Clostridium perfringens and Clostridium beijerinckii indicated C. saccharobutylicum to be most similar to the latter two Clostridium species, with the order of the genes within the gyrAB and recA loci being conserved. PMID:11429467

  9. Physical and genetic map of the Clostridium saccharobutylicum (formerly Clostridium acetobutylicum) NCP 262 chromosome.

    Science.gov (United States)

    Keis, S; Sullivan, J T; Jones, D T

    2001-07-01

    A physical and genetic map of the Clostridium saccharobutylicum NCP 262 chromosome was constructed. The order of macrorestriction fragments was determined by analysing fragments generated after single and double digestion with the restriction enzymes BssHII, I-CeuI, Sse8387I, RsrII and SfiI and separation by PFGE. The I-CeuI backbone of C. saccharobutylicum was constructed by indirect end-labelling with rrs- and 3' rrl-specific probes located on either side of the I-CeuI site in the rrn operon, and reciprocal separation of BssHII and I-CeuI digestion products by two-dimensional PFGE. The positions of BssHII fragments on the physical map were determined using a library of linking clones containing BssHII cleavage sites. The size of the circular genome was estimated to be 5.3 Mb with a mean resolution of approximately 140 kb. The chromosome of C. saccharobutylicum contains 12 rrn operons, located on 46% of the chromosome, which are transcribed divergently from the deduced origin of replication. The genetic map was constructed by determining the location of 28 genes involved in house-keeping, heat-shock response, sporulation, electron transfer and acid- and solvent-formation. Comparison of the C. saccharobutylicum genetic map with those of the spore-forming bacteria Bacillus subtilis, Clostridium acetobutylicum, Clostridium perfringens and Clostridium beijerinckii indicated C. saccharobutylicum to be most similar to the latter two Clostridium species, with the order of the genes within the gyrAB and recA loci being conserved.

  10. BAC Library Construction and Physical Mapping of Bacillus anthracis A16R

    Directory of Open Access Journals (Sweden)

    Da Zhang

    2013-12-01

    Full Text Available Bacillus anthracis is an endospore-forming bacterium that causes severe inhalational anthrax, and bacillus anthracis A16R is an attenuated strain derived from Bacillus anthracis A16. The development of bacterial artificial chromosome (BAC system has allowed the construction of large insert-size DNA libraries, and the bacterial artificial chromosomes (BACs have become the preferred large insert cloning system for genomic analysis because such libraries are characteristically stable, high in fidelity and easy to handle. To facilitate genome studies of this bacterium, a bacterial artificial chromosome library (BAC has been established from genome DNA of Bacillus anthracis A16R. This library consisted of 9 600 clones randomly selected from more than 15 000 recombinant clones carrying inserts in the plindigoBAC-5 vectors. The mean insert size was 56 kbp, representing an approximate 12-fold genome coverage, while end sequences were obtained from 700 randomly selected clones. Sequences were compared with Bacillus anthracis Ames and Bacillus cereus ATCC 14579 Genome Project databases using the NCBI BLASTN search project. And most BLASTN results showed high identities and that the sequences’ sites could be used as STSs. To construct this physical map, Excel was used for the array of STSs and some gaps of the map were filled up by PCR walking. Artemis-V4 was used in the construction of a genome-wide physical map with 93% genome coverage. The A16R BAC library proved to be a vital tool for the generation of a map that would not only allow the subsequent sequencing of defined areas of genome, but also provide immediate access to clones that were stable and convenient for functional genomic researches.

  11. Whole school mapping to investigate the school environment's potential to promote a healthy diet and physical activity in Malaysia

    OpenAIRE

    Hayati Adilin, M.A.M.; Holdsworth, M.; McCullough, F; Swift, J. A.; Norimah, A.K.

    2015-01-01

    Introduction: The school is a vital part in the development of children's dietary practices as children consume a substantial proportion of their daily intake at school. The school environment offers an ideal location for health education and intervention against physical inactivity and poor nutritional intake. Methods: A mapping tool was developed to map the school environment on four levels: physical, economic, political, and socio-cultural that can potentially affect healthy eating an...

  12. PHYSICAL VALUE MAPPING ALGORITHM OF MESH IN FINE CAE ANALYSIS OF AUTOMOBILE BODY STRUCTURE

    Institute of Scientific and Technical Information of China (English)

    Hu Ping; Gong Kejia; Bao Yidong

    2005-01-01

    A physical value mapping (PVM) algorithm based on finite element mesh from the stamped part in stamping process to the product is presented. In order to improve the efficiency of the PVM algorithm, a search way from the mesh of the product to the mesh of the stamped part will be adopted. At the same time, the search process is divided into two steps: entire search (ES) and local search (LS), which improve the searching efficiency. The searching area is enlarged to avoid missing projection elements in ES process. An arc-length method is introduced in LS process. The validity is confirmed by the results of the complex industry-forming product.

  13. Characterizing physical habitats in rivers using map-derived drivers of fluvial geomorphic processes

    Science.gov (United States)

    Bizzi, Simone; Lerner, David N.

    2012-10-01

    New understanding of fluvial geomorphological processes has successfully informed flood mitigation strategies and rehabilitation schemes in recent years. However well established geomorphological assessments are location-specific and demanding in terms of resource and expertise required, and their routine application for regional or national river characterization, although desirable, is unlikely at present. This paper proposes a framework based on GIS procedures, empirical relationships and the self organized map for the analysis and classification of map-derived drivers of fluvial morphological processes. The geomorphic controls analysed are: channel gradient and hydrology, specific stream power, river order and floodplain extent. The case study is a gravel bed river in England. Using the self organized map, we analyse patterns of these controls along the river longitudinal profile and identify clusters of similar configuration. The reciprocal relationships that emerge amongst the geomorphic controls reflect the hierarchical nature of fluvial systems and are consistent with the current theoretical understanding of fluvial processes. Field observations from the River Habitat Survey are used to prove the influence of geomorphic drivers on reach-scale morphological forms. Six clusters are identified which describe six distinctive channel types. These proved to be characterized by distinctive configurations of geomorphic drivers and specific sets of physical habitat features. The method successfully characterizes the notable transitions in channel character along the river course. The framework is suitable for regional or national scale assessments through automatic GIS and statistical procedures with moderate effort.

  14. High-resolution physical map for chromosome 16q12.1-q13, the Blau syndrome locus

    Directory of Open Access Journals (Sweden)

    Bonavita Gina

    2002-08-01

    Full Text Available Abstract Background The Blau syndrome (MIM 186580, an autosomal dominant granulomatous disease, was previously mapped to chromosome 16p12-q21. However, inconsistent physical maps of the region and consequently an unknown order of microsatellite markers, hampered us from further refining the genetic locus for the Blau syndrome. To address this problem, we constructed our own high-resolution physical map for the Blau susceptibility region. Results We generated a high-resolution physical map that provides more than 90% coverage of a refined Blau susceptibility region. The map consists of four contigs of sequence tagged site-based bacterial artificial chromosomes with a total of 124 bacterial artificial chromosomes, and spans approximately 7.5 Mbp; however, three gaps still exist in this map with sizes of 425, 530 and 375 kbp, respectively, estimated from radiation hybrid mapping. Conclusions Our high-resolution map will assist genetic studies of loci in the interval from D16S3080, near D16S409, and D16S408 (16q12.1 to 16q13.

  15. Comparative physical mapping links conservation of microsynteny to chromosome structure and recombination in grasses

    Science.gov (United States)

    Bowers, John E.; Arias, Miguel A.; Asher, Rochelle; Avise, Jennifer A.; Ball, Robert T.; Brewer, Gene A.; Buss, Ryan W.; Chen, Amy H.; Edwards, Thomas M.; Estill, James C.; Exum, Heather E.; Goff, Valorie H.; Herrick, Kristen L.; Steele, Cassie L. James; Karunakaran, Santhosh; Lafayette, Gmerice K.; Lemke, Cornelia; Marler, Barry S.; Masters, Shelley L.; McMillan, Joana M.; Nelson, Lisa K.; Newsome, Graham A.; Nwakanma, Chike C.; Odeh, Rosana N.; Phelps, Cynthia A.; Rarick, Elizabeth A.; Rogers, Carl J.; Ryan, Sean P.; Slaughter, Keimun A.; Soderlund, Carol A.; Tang, Haibao; Wing, Rod A.; Paterson, Andrew H.

    2005-01-01

    Nearly finished sequences for model organisms provide a foundation from which to explore genomic diversity among other taxonomic groups. We explore genome-wide microsynteny patterns between the rice sequence and two sorghum physical maps that integrate genetic markers, bacterial artificial chromosome (BAC) fingerprints, and BAC hybridization data. The sorghum maps largely tile a genomic component containing 41% of BACs but 80% of single-copy genes that shows conserved microsynteny with rice and partially tile a nonsyntenic component containing 46% of BACs but only 13% of single-copy genes. The remaining BACs are centromeric (4%) or unassigned (8%). The two genomic components correspond to cytologically discernible “euchromatin” and “heterochromatin.” Gene and repetitive DNA distributions support this classification. Greater microcolinearity in recombinogenic (euchromatic) than nonrecombinogenic (heterochromatic) regions is consistent with the hypothesis that genomic rearrangements are usually deleterious, thus more likely to persist in nonrecombinogenic regions by virtue of Muller's ratchet. Interchromosomal centromeric rearrangements may have fostered diploidization of a polyploid cereal progenitor. Model plant sequences better guide studies of related genomes in recombinogenic than nonrecombinogenic regions. Bridging of 35 physical gaps in the rice sequence by sorghum BAC contigs illustrates reciprocal benefits of comparative approaches that extend at least across the cereals and perhaps beyond. PMID:16141333

  16. Optimization of the sampling scheme for maps of physical and chemical properties estimated by kriging

    Directory of Open Access Journals (Sweden)

    Gener Tadeu Pereira

    2013-10-01

    Full Text Available The sampling scheme is essential in the investigation of the spatial variability of soil properties in Soil Science studies. The high costs of sampling schemes optimized with additional sampling points for each physical and chemical soil property, prevent their use in precision agriculture. The purpose of this study was to obtain an optimal sampling scheme for physical and chemical property sets and investigate its effect on the quality of soil sampling. Soil was sampled on a 42-ha area, with 206 geo-referenced points arranged in a regular grid spaced 50 m from each other, in a depth range of 0.00-0.20 m. In order to obtain an optimal sampling scheme for every physical and chemical property, a sample grid, a medium-scale variogram and the extended Spatial Simulated Annealing (SSA method were used to minimize kriging variance. The optimization procedure was validated by constructing maps of relative improvement comparing the sample configuration before and after the process. A greater concentration of recommended points in specific areas (NW-SE direction was observed, which also reflects a greater estimate variance at these locations. The addition of optimal samples, for specific regions, increased the accuracy up to 2 % for chemical and 1 % for physical properties. The use of a sample grid and medium-scale variogram, as previous information for the conception of additional sampling schemes, was very promising to determine the locations of these additional points for all physical and chemical soil properties, enhancing the accuracy of kriging estimates of the physical-chemical properties.

  17. Coupling ocean colour remote sensing data into physical-ecosystem models: mapping uncertainty distributions from space.

    Science.gov (United States)

    McKee, David; Twardowski, Mike; Trees, Chuck; Sanjuan Calzado, Violeta

    2014-05-01

    Ocean colour remote sensing (OCRS) has transformed our understanding of complex feedback processes linking physical forcing events to biogeochemical responses. With continuous daily global coverage extending beyond the last decade, OCRS has become established as an essential global climate variable with potential use as a sensitive indicator of regional and global response to changing climate. There is increasing focus on use of OCRS data for validation and assimilation into coupled physical-ecosystem models for both environmental and operational applications. It is therefore essential that OCRS data products are not only optimised for maximum accuracy, but are also provided to end users with appropriate uncertainties. A simple spectral deconvolution model will be presented along with a new bootstrap approach for estimating product uncertainties. This approach can be adapted for both remote sensing and in situ data, opening up the possibility of mapping uncertainty distributions in 3-D for the first time, and can be applied to other established OCRS data products, including the existent historic data set. Ecosystem models seek to reproduce and predict ocean biogeochemical processes, where the models are constrained by physical parameters such as: wind, currents, density and light. The hydrographic aspects of marine ecosystems can generally be defined through ocean circulation models, which are largely independent of the ecosystem itself. The physical optics determining the light environment, on the other hand, are two-way coupled with ecosystem models since light interacts with seawater and suspended constituents. The Optical Physical and Ecosystem Regional Assessment (OPERA) model proposes a more comprehensive and challenging approach, where all optical interactions occurring within the volume of water are taken into account, thus providing a more accurate definition of light dependent processes.

  18. Theory, evidence and Intervention Mapping to improve behavior nutrition and physical activity interventions

    Directory of Open Access Journals (Sweden)

    Ferreira Isabel

    2005-04-01

    Full Text Available Abstract Background The present paper intends to contribute to the debate on the usefulness and barriers in applying theories in diet and physical activity behavior-change interventions. Discussion Since behavior theory is a reflection of the compiled evidence of behavior research, theory is the only foothold we have for the development of behavioral nutrition and physical activity interventions. Application of theory should improve the effectiveness of interventions. However, some of the theories we use lack a strong empirical foundation, and the available theories are not always used in the most effective way. Furthermore, many of the commonly-used theories provide at best information on what needs to be changed to promote healthy behavior, but not on how changes can be induced. Finally, many theories explain behavioral intentions or motivation rather well, but are less well-suited to explaining or predicting actual behavior or behavior change. For more effective interventions, behavior change theory needs to be further developed in stronger research designs and such change-theory should especially focus on how to promote action rather than mere motivation. Since voluntary behavior change requires motivation, ability as well as the opportunity to change, further development of behavior change theory should incorporate environmental change strategies. Conclusion Intervention Mapping may help to further improve the application of theories in nutrition and physical activity behavior change.

  19. Intensity Maps Production Using Real-Time Joint Streaming Data Processing From Social and Physical Sensors

    Science.gov (United States)

    Kropivnitskaya, Y. Y.; Tiampo, K. F.; Qin, J.; Bauer, M.

    2015-12-01

    Intensity is one of the most useful measures of earthquake hazard, as it quantifies the strength of shaking produced at a given distance from the epicenter. Today, there are several data sources that could be used to determine intensity level which can be divided into two main categories. The first category is represented by social data sources, in which the intensity values are collected by interviewing people who experienced the earthquake-induced shaking. In this case, specially developed questionnaires can be used in addition to personal observations published on social networks such as Twitter. These observations are assigned to the appropriate intensity level by correlating specific details and descriptions to the Modified Mercalli Scale. The second category of data sources is represented by observations from different physical sensors installed with the specific purpose of obtaining an instrumentally-derived intensity level. These are usually based on a regression of recorded peak acceleration and/or velocity amplitudes. This approach relates the recorded ground motions to the expected felt and damage distribution through empirical relationships. The goal of this work is to implement and evaluate streaming data processing separately and jointly from both social and physical sensors in order to produce near real-time intensity maps and compare and analyze their quality and evolution through 10-minute time intervals immediately following an earthquake. Results are shown for the case study of the M6.0 2014 South Napa, CA earthquake that occurred on August 24, 2014. The using of innovative streaming and pipelining computing paradigms through IBM InfoSphere Streams platform made it possible to read input data in real-time for low-latency computing of combined intensity level and production of combined intensity maps in near-real time. The results compare three types of intensity maps created based on physical, social and combined data sources. Here we correlate

  20. DIGITAL FLOOD INSURANCE RATE MAP DATABASE, DODGE COUNTY, WISCONSIN (AND INCORPORATED AREAS) - Fox Lake Physical Map Revision

    Data.gov (United States)

    Federal Emergency Management Agency, Department of Homeland Security — The Digital Flood Insurance Rate Map (DFIRM) Database depicts flood risk information and supporting data used to develop the risk data. The primary risk;...

  1. Physical Parameter Eclipse Mapping of the quiescent disc in V2051 Ophiuchi

    CERN Document Server

    Vrielmann, S; Offutt, W; Stiening, Rae F.; Offutt, Warren

    2002-01-01

    We analyse simultaneous UBVR quiescent light curves of the cataclysmic variable V2051 Oph using the Physical Parameter Eclipse Mapping method in order to map the gas temperature and surface density of the disc for the first time. The disc appears optically thick in the central regions and gradually becomes optically thin towards the disc edge or shows a more and more dominating temperature inversion in the disc chromosphere. The gas temperatures in the disc range from about 13500 K near the white dwarf to about 6000 K at the disc edge. The intermediate part of the disc has temperatures of 9000 K to 6500 K. The quiescent disc (chromosphere) shows a prominent bright region with temperatures of 10500 K around the impact region of the stream from the secondary with an extension towards smaller azimuths. The disc has a size of 0.53 +- 0.03 R_L1 and a mass accretion rate of between dM/dt = 10^15 g/s to 10^17g/s. The light curves must include an uneclipsed component, a hot chromosphere and/or a disc wind. The PPEM m...

  2. Physical and genetic mapping of the genomes of five Mycoplasma hominis strains by pulsed-field gel electrophoresis

    DEFF Research Database (Denmark)

    Ladefoged, Søren; Christiansen, Gunna

    1992-01-01

    We present the complete maps of five Mycoplasma hominis genomes, including a detailed restriction map and the locations of a number of genetic loci. The restriction fragments were resolved by field inversion gel electrophoresis or by the contour-clamped homogeneous-electric-field system of pulsed......-field gel electrophoresis. All the ApaI, SmaI, BamHI, XhoI, and SalI restriction sites (total of 21 to 33 sites in each strain) were placed on the physical map, yielding an average resolution of 26 kb. The maps were constructed using three different approaches: (i) size determination of DNA fragments...... partially or completely cleaved with one or two restriction enzymes, (ii) hybridization analysis with purified restriction fragments and specific probes, and (iii) use of linking clones. A genetic map was constructed by hybridization with gene-specific probes for rpoA, rpoC, rrn, tuf, gyrB, hup, fts...

  3. Construction of physical and genetic maps of Chlamydia trachomatis serovar L2 by pulsed-field gel electrophoresis

    DEFF Research Database (Denmark)

    Birkelund, Svend; Stephens, RS

    1992-01-01

    We constructed the physical map of Chlamydia trachomatis serovar L2 by using three restriction endonucleases, NotI (GC[GGCCGC), SgrAI (C(A/G)[CCGG(T/G)G), and Sse8387I (CCTGCA[GG), and we analyzed the fragments by pulsed-field gel electrophoresis. A total of 25 restriction endonuclease sites and 13...

  4. A new physical mapping approach refines the sex-determining gene positions on the Silene latifolia Y-chromosome

    Science.gov (United States)

    Kazama, Yusuke; Ishii, Kotaro; Aonuma, Wataru; Ikeda, Tokihiro; Kawamoto, Hiroki; Koizumi, Ayako; Filatov, Dmitry A.; Chibalina, Margarita; Bergero, Roberta; Charlesworth, Deborah; Abe, Tomoko; Kawano, Shigeyuki

    2016-01-01

    Sex chromosomes are particularly interesting regions of the genome for both molecular genetics and evolutionary studies; yet, for most species, we lack basic information, such as the gene order along the chromosome. Because they lack recombination, Y-linked genes cannot be mapped genetically, leaving physical mapping as the only option for establishing the extent of synteny and homology with the X chromosome. Here, we developed a novel and general method for deletion mapping of non-recombining regions by solving “the travelling salesman problem”, and evaluate its accuracy using simulated datasets. Unlike the existing radiation hybrid approach, this method allows us to combine deletion mutants from different experiments and sources. We applied our method to a set of newly generated deletion mutants in the dioecious plant Silene latifolia and refined the locations of the sex-determining loci on its Y chromosome map.

  5. Concept Maps as a Research and Evaluation Tool To Assess Conceptual Change in Quantum Physics.

    Science.gov (United States)

    Sen, Ahmet Ilhan

    2002-01-01

    Informs teachers about using concept maps as a learning tool and alternative assessment tools in education. Presents research results of how students might use concept maps to communicate their cognitive structure. (Author/KHR)

  6. BESIII Physics Data Storing and Processing on HBase and MapReduce

    Science.gov (United States)

    LEI, Xiaofeng; Li, Qiang; Kan, Bowen; Sun, Gongxing; Sun, Zhenyu

    2015-12-01

    In the past years, we have successfully applied Hadoop to high-energy physics analysis. Although, it has not only improved the efficiency of data analysis, but also reduced the cost of cluster building so far, there are still some spaces to be optimized, like inflexible pre-selection, low-efficient random data reading and I/O bottleneck caused by Fuse that is used to access HDFS. In order to change this situation, this paper presents a new analysis platform for high-energy physics data storing and analysing. The data structure is changed from DST tree-like files to HBase according to the features of the data itself and analysis processes, since HBase is more suitable for processing random data reading than DST files and enable HDFS to be accessed directly. A few of optimization measures are taken for the purpose of getting a good performance. A customized protocol is defined for data serializing and desterilizing for the sake of decreasing the storage space in HBase. In order to make full use of locality of data storing in HBase, utilizing a new MapReduce model and a new split policy for HBase regions are proposed in the paper. In addition, a dynamic pluggable easy-to-use TAG (event metadata) based pre-selection subsystem is established. It can assist physicists even to filter out 999%o uninterested data, if the conditions are set properly. This means that a lot of I/O resources can be saved, the CPU usage can be improved and consuming time for data analysis can be reduced. Finally, several use cases are designed, the test results show that the new platform has an excellent performance with 3.4 times faster with pre-selection and 20% faster without preselection, and the new platform is stable and scalable as well.

  7. SNP discovery and chromosome anchoring provide the first physically-anchored hexaploid oat map and reveal synteny with model species.

    Directory of Open Access Journals (Sweden)

    Rebekah E Oliver

    Full Text Available A physically anchored consensus map is foundational to modern genomics research; however, construction of such a map in oat (Avena sativa L., 2n = 6x = 42 has been hindered by the size and complexity of the genome, the scarcity of robust molecular markers, and the lack of aneuploid stocks. Resources developed in this study include a modified SNP discovery method for complex genomes, a diverse set of oat SNP markers, and a novel chromosome-deficient SNP anchoring strategy. These resources were applied to build the first complete, physically-anchored consensus map of hexaploid oat. Approximately 11,000 high-confidence in silico SNPs were discovered based on nine million inter-varietal sequence reads of genomic and cDNA origin. GoldenGate genotyping of 3,072 SNP assays yielded 1,311 robust markers, of which 985 were mapped in 390 recombinant-inbred lines from six bi-parental mapping populations ranging in size from 49 to 97 progeny. The consensus map included 985 SNPs and 68 previously-published markers, resolving 21 linkage groups with a total map distance of 1,838.8 cM. Consensus linkage groups were assigned to 21 chromosomes using SNP deletion analysis of chromosome-deficient monosomic hybrid stocks. Alignments with sequenced genomes of rice and Brachypodium provide evidence for extensive conservation of genomic regions, and renewed encouragement for orthology-based genomic discovery in this important hexaploid species. These results also provide a framework for high-resolution genetic analysis in oat, and a model for marker development and map construction in other species with complex genomes and limited resources.

  8. Physical mapping resources for large plant genomes: radiation hybrids for wheat D-genome progenitor Aegilops tauschii

    Directory of Open Access Journals (Sweden)

    Kumar Ajay

    2012-11-01

    Full Text Available Abstract Background Development of a high quality reference sequence is a daunting task in crops like wheat with large (~17Gb, highly repetitive (>80% and polyploid genome. To achieve complete sequence assembly of such genomes, development of a high quality physical map is a necessary first step. However, due to the lack of recombination in certain regions of the chromosomes, genetic mapping, which uses recombination frequency to map marker loci, alone is not sufficient to develop high quality marker scaffolds for a sequence ready physical map. Radiation hybrid (RH mapping, which uses radiation induced chromosomal breaks, has proven to be a successful approach for developing marker scaffolds for sequence assembly in animal systems. Here, the development and characterization of a RH panel for the mapping of D-genome of wheat progenitor Aegilops tauschii is reported. Results Radiation dosages of 350 and 450 Gy were optimized for seed irradiation of a synthetic hexaploid (AABBDD wheat with the D-genome of Ae. tauschii accession AL8/78. The surviving plants after irradiation were crossed to durum wheat (AABB, to produce pentaploid RH1s (AABBD, which allows the simultaneous mapping of the whole D-genome. A panel of 1,510 RH1 plants was obtained, of which 592 plants were generated from the mature RH1 seeds, and 918 plants were rescued through embryo culture due to poor germination (1 seeds. This panel showed a homogenous marker loss (2.1% after screening with SSR markers uniformly covering all the D-genome chromosomes. Different marker systems mostly detected different lines with deletions. Using markers covering known distances, the mapping resolution of this RH panel was estimated to be cM/cR ratio of 1:5.2 and 15 distinct bins. Additionally, with this small set of lines, almost all the tested ESTs could be mapped. A set of 399 most informative RH lines with an average deletion frequency of ~10% were identified for developing high density marker

  9. The concept map as a tool for the collaborative construction of knowledge: A microanalysis of high school physics students

    Science.gov (United States)

    Roth, Wolff-Michael; Roychoudhury, Anita

    Although concept mapping has been shown to help students in meaningful learning, particularly when done as a collaborative activity, little has been done to understand the microprocesses during the activity itself. However, in order to be able to improve the activity as a teaching and learning heuristic, we have to know more about the microprocesses that constitute concept mapping as process and as product. This study was designed to investigate concept mapping as a means of assessing the quality of student understanding from two perspectives: the analysis of the process of constructing meaning and the analysis of the products of this cognitive activity. An interpretive research methodology was adopted for the construction of meaning from the data. Twenty-nine students from two sections of a senior level high school physics course participated in the study. The data sources included videotapes, their transcripts, and all concept maps produced. Students worked in collaborative groups during all of the concept mapping sessions. Individual concept mapping was assessed twice, once delayed by a week, another time delayed by 6 weeks. To assess what happened to the cognitive achievement as the context of concept mapping changed from collaborative to individual activity, we used a tracer. A tracer is some bit of knowledge, procedure, or action that allows the researcher to follow a task through various settings. The concept maps as products differed in their hierarchical organization, the number of links, and the benefit to the individual students. Three major processes emerged, which students used to arrive at suitable propositions. Students mediated propositions verbally and nonverbally, they took adversarial positions and appealed to authority, and they formed temporary alliances based on presumed expertise. Both product and process hold promise but also show some limitations. On the positive side, concept mapping led to sustained discourse on the topic and improved the

  10. Hierarchical Bayesian approach for estimating physical properties in spiral galaxies: Age Maps for M74

    CERN Document Server

    Gil, M Carmen Sánchez; Alfaro, Emilio J; Pérez, Enrique; Sarro, Luis M

    2015-01-01

    One of the fundamental goals of modern Astronomy is to estimate the physical parameters of galaxies from images in different spectral bands. We present a hierarchical Bayesian model for obtaining age maps from images in the \\Ha\\ line (taken with Taurus Tunable Filter (TTF)), ultraviolet band (far UV or FUV, from GALEX) and infrared bands (24, 70 and 160 microns ($\\mu$m), from Spitzer). As shown in S\\'anchez-Gil et al. (2011), we present the burst ages for young stellar populations in the nearby and nearly face on galaxy M74. As it is shown in the previous work, the \\Ha\\ to FUV flux ratio gives a good relative indicator of very recent star formation history (SFH). As a nascent star-forming region evolves, the \\Ha\\ line emission declines earlier than the UV continuum, leading to a decrease in the \\Ha\\/FUV ratio. Through a specific star-forming galaxy model (Starburst 99, SB99), we can obtain the corresponding theoretical ratio \\Ha\\ / FUV to compare with our observed flux ratios, and thus to estimate the ages of...

  11. A 4-gigabase physical map unlocks the structure and evolution of the complex genome of Aegilops tauschii, the wheat D-genome progenitor

    Science.gov (United States)

    The current limitations in genome sequencing technology require the construction of physical maps for high-quality draft sequences of large plant genomes, such as that of Aegilops tauschii, the wheat D-genome progenitor. To construct a physical map of the Ae. tauschii genome, we fingerprinted 461,70...

  12. SNP Discovery and Chromosome Anchoring Provide the First Physically-Anchored Hexaploid Oat Map and Reveal Synteny with Model Species.

    OpenAIRE

    Rebekah E Oliver; Tinker, Nicholas A.; Lazo, Gerard R.; Shiaoman Chao; Jellen, Eric N.; Martin L. Carson; Rines, Howard W; Donald E Obert; Lutz, Joseph D.; Irene Shackelford; Korol, Abraham B.; Charlene P. Wight; Gardner, Kyle M.; Jiro Hattori; Beattie, Aaron D

    2013-01-01

    A physically anchored consensus map is foundational to modern genomics research; however, construction of such a map in oat (Avena sativa L., 2n = 6x = 42) has been hindered by the size and complexity of the genome, the scarcity of robust molecular markers, and the lack of aneuploid stocks. Resources developed in this study include a modified SNP discovery method for complex genomes, a diverse set of oat SNP markers, and a novel chromosome-deficient SNP anchoring strategy. These resources wer...

  13. Geoprocessing via google maps for assessing obesogenic built environments related to physical activity and chronic noncommunicable diseases: validity and reliability.

    Science.gov (United States)

    Silva, Valter; Grande, Antonio Jose; Rech, Cassiano Ricardo; Peccin, Maria Stella

    2015-01-01

    This study analyzes the reliability and validity of obesogenic built environments related to physical activity and chronic noncommunicable diseases through Google Maps in a heterogeneous urban area (i.e., residential and commercial, very poor and very rich) in São Paulo (SP), Brazil. There are no important differences when comparing virtual measures with street audit. Based on Kappa statistic, respectively for validity and reliability, 78% and 80% of outcomes were classified as nearly perfect agreement or substantial agreement. Virtual measures of geoprocessing via Google Maps provided high validity and reliability for assessing built environments.

  14. Using Computer-Assisted Argumentation Mapping to develop effective argumentation skills in high school advanced placement physics

    Science.gov (United States)

    Heglund, Brian

    Educators recognize the importance of reasoning ability for development of critical thinking skills, conceptual change, metacognition, and participation in 21st century society. There is a recognized need for students to improve their skills of argumentation, however, argumentation is not explicitly taught outside logic and philosophy---subjects that are not part of the K-12 curriculum. One potential way of supporting the development of argumentation skills in the K-12 context is through incorporating Computer-Assisted Argument Mapping to evaluate arguments. This quasi-experimental study tested the effects of such argument mapping software and was informed by the following two research questions: 1. To what extent does the collaborative use of Computer-Assisted Argumentation Mapping to evaluate competing theories influence the critical thinking skill of argument evaluation, metacognitive awareness, and conceptual knowledge acquisition in high school Advanced Placement physics, compared to the more traditional method of text tables that does not employ Computer-Assisted Argumentation Mapping? 2. What are the student perceptions of the pros and cons of argument evaluation in the high school Advanced Placement physics environment? This study examined changes in critical thinking skills, including argumentation evaluation skills, as well as metacognitive awareness and conceptual knowledge, in two groups: a treatment group using Computer-Assisted Argumentation Mapping to evaluate physics arguments, and a comparison group using text tables to evaluate physics arguments. Quantitative and qualitative methods for collecting and analyzing data were used to answer the research questions. Quantitative data indicated no significant difference between the experimental groups, and qualitative data suggested students perceived pros and cons of argument evaluation in the high school Advanced Placement physics environment, such as self-reported sense of improvement in argument

  15. The Effect of Using Concept Mapping on Student’s Attitude and Achievement When Learning the Physics Topic of Circular and Rotational Motion

    OpenAIRE

    Chinyama, Kaumba; Jumbe, Jack; Luchembe, Dennis

    2014-01-01

    The study was conducted to show the effectiveness of concept mapping as a teaching strategy to undergraduate students taking introductory physics course. A number of researchers have investigated the effectiveness of concept mapping on student academic achievement. The main focus of these studies have been on comparing the effectiveness of concept mapping to traditional teaching practices such as the lecture method. This research, however, compares concept mapping to tutorial sheets strategy ...

  16. Physical mapping and BAC-end sequence analysis provide initial insights into the flax (Linum usitatissimum L. genome

    Directory of Open Access Journals (Sweden)

    Cloutier Sylvie

    2011-05-01

    Full Text Available Abstract Background Flax (Linum usitatissimum L. is an important source of oil rich in omega-3 fatty acids, which have proven health benefits and utility as an industrial raw material. Flax seeds also contain lignans which are associated with reducing the risk of certain types of cancer. Its bast fibres have broad industrial applications. However, genomic tools needed for molecular breeding were non existent. Hence a project, Total Utilization Flax GENomics (TUFGEN was initiated. We report here the first genome-wide physical map of flax and the generation and analysis of BAC-end sequences (BES from 43,776 clones, providing initial insights into the genome. Results The physical map consists of 416 contigs spanning ~368 Mb, assembled from 32,025 fingerprints, representing roughly 54.5% to 99.4% of the estimated haploid genome (370-675 Mb. The N50 size of the contigs was estimated to be ~1,494 kb. The longest contig was ~5,562 kb comprising 437 clones. There were 96 contigs containing more than 100 clones. Approximately 54.6 Mb representing 8-14.8% of the genome was obtained from 80,337 BES. Annotation revealed that a large part of the genome consists of ribosomal DNA (~13.8%, followed by known transposable elements at 6.1%. Furthermore, ~7.4% of sequence was identified to harbour novel repeat elements. Homology searches against flax-ESTs and NCBI-ESTs suggested that ~5.6% of the transcriptome is unique to flax. A total of 4064 putative genomic SSRs were identified and are being developed as novel markers for their use in molecular breeding. Conclusion The first genome-wide physical map of flax constructed with BAC clones provides a framework for accessing target loci with economic importance for marker development and positional cloning. Analysis of the BES has provided insights into the uniqueness of the flax genome. Compared to other plant genomes, the proportion of rDNA was found to be very high whereas the proportion of known transposable

  17. Novel methods for physical mapping of the human genome applied to the long arm of chromosome 5. Final report

    Energy Technology Data Exchange (ETDEWEB)

    McClelland, M.

    1991-12-01

    The object of our current grant is to develop novel methods for mapping of the human genome. The techniques to be assessed were: (1) three methods for the production of unique sequence clones from the region of interest; (2) novel methods for the production and separation of multi-megabase DNA fragments; (3) methods for the production of ``physical linking clones`` that contain rare restriction sites; (4) application of these methods and available resources to map the region of interest. Progress includes: In the first two years methods were developed for physical mapping and the production of arrayed clones; We have concentrated on developing rare- cleavage tools based or restriction endonucleases and methylases; We studied the effect of methylation on enzymes used for PFE mapping of the human genome; we characterized two new isoschizomers of rare cutting endonucleases; we developed a reliable way to produce partial digests of DNA in agarose plugs and applied it to the human genome; and we applied a method to double the apparent specificity of the ``rare-cutter`` endonucleases.

  18. Novel methods for physical mapping of the human genome applied to the long arm of chromosome 5

    Energy Technology Data Exchange (ETDEWEB)

    McClelland, M.

    1991-12-01

    The object of our current grant is to develop novel methods for mapping of the human genome. The techniques to be assessed were: (1) three methods for the production of unique sequence clones from the region of interest; (2) novel methods for the production and separation of multi-megabase DNA fragments; (3) methods for the production of physical linking clones'' that contain rare restriction sites; (4) application of these methods and available resources to map the region of interest. Progress includes: In the first two years methods were developed for physical mapping and the production of arrayed clones; We have concentrated on developing rare- cleavage tools based or restriction endonucleases and methylases; We studied the effect of methylation on enzymes used for PFE mapping of the human genome; we characterized two new isoschizomers of rare cutting endonucleases; we developed a reliable way to produce partial digests of DNA in agarose plugs and applied it to the human genome; and we applied a method to double the apparent specificity of the rare-cutter'' endonucleases.

  19. Mapping University Students' Epistemic Framing of Computational Physics Using Network Analysis

    Science.gov (United States)

    Bodin, Madelen

    2012-01-01

    Solving physics problem in university physics education using a computational approach requires knowledge and skills in several domains, for example, physics, mathematics, programming, and modeling. These competences are in turn related to students' beliefs about the domains as well as about learning. These knowledge and beliefs components are…

  20. Physical and transcription map of a 25 Mb region on human chromosome 7 (region q21-q22)

    Energy Technology Data Exchange (ETDEWEB)

    Scherer, S. [Univ. of Toronto (Canada)]|[Hosptial for Sick Children, Toronto (Canada); Little, S.; Vandenberg, A. [Hospital for Sick Children, Toronto (Canada)] [and others

    1994-09-01

    We are interested in the q21-q22 region of chromosome 7 because of its implication in a number of diseases. This region of about 25 Mb appears to be involved in ectrodactyly/ectodermal dysplasia/cleft plate (EEC) and split hand/split foot deformity (SHFD1), as well as myelodysplastic syndrome and acute non-lymphocyte leukemia. In order to identify the genes responsible for these and other diseases, we have constructed a physical map of this region. The proximal and distal boundaries of the region were operationally defined by the microsatellite markers D7S660 and D7S692, which are about 35 cM apart. This region between these two markers could be divided into 13 intervals on the basis of chromosome breakpoints contained in somatic cell hybrids. The map positions for 43 additional microsatellite markers and 25 cloned genes were determined with respect to these intervals. A physical map based on contigs of over 250 YACs has also been assembled. While the contigs encompass all of the known genetic markers mapped to the region and almost cover the entire 25-Mb region, there are 3 gaps on the map. One of these gaps spans a set of DNA markers for which no corresponding YAC clones could be identified. To connect the two adjacent contigs we have initiated cosmid walking with a chromosome 7-specific library (Lawrence Livermore Laboratory). A tiling path of 60 contiguous YAC clones has been assembled and used for direct cDNA selection. Over 300 cDNA clones have been isolated and characterized. They are being grouped into transcription units by Northern blot analysis and screening of full-length cDNA libraries. Further, exon amplification and direct cDNA library screening with evolutionarily conserved sequences are being performed for a 1-Mb region spanning the SHFD1 locus to ensure detection of all transcribed sequences.

  1. Mining plant genome browsers as a means for efficient connection of physical, genetic and cytogenetic mapping: an example using soybean

    Directory of Open Access Journals (Sweden)

    Luis C. Belarmino

    2012-01-01

    Full Text Available Physical maps are important tools to uncover general chromosome structure as well as to compare different plant lineages and species, helping to elucidate genome structure, evolution and possibilities regarding synteny and colinearity. The increasing production of sequence data has opened an opportunity to link information from mapping studies to the underlying sequences. Genome browsers are invaluable platforms that provide access to these sequences, including tools for genome analysis, allowing the integration of multivariate information, and thus aiding to explain the emergence of complex genomes. The present work presents a tutorial regarding the use of genome browsers to develop targeted physical mapping, providing also a general overview and examples about the possibilities regarding the use of Fluorescent In Situ Hybridization (FISH using bacterial artificial chromosomes (BAC, simple sequence repeats (SSR and rDNA probes, highlighting the potential of such studies for map integration and comparative genetics. As a case study, the available genome of soybean was accessed to show how the physical and in silico distribution of such sequences may be compared at different levels. Such evaluations may also be complemented by the identification of sequences beyond the detection level of cytological methods, here using members of the aquaporin gene family as an example. The proposed approach highlights the complementation power of the combination of molecular cytogenetics and computational approaches for the anchoring of coding or repetitive sequences in plant genomes using available genome browsers, helping in the determination of sequence location, arrangement and number of repeats, and also filling gaps found in computational pseudochromosome assemblies.

  2. Evidence, Theory and Context: Using intervention mapping to develop a worksite physical activity intervention

    OpenAIRE

    Conner Mark; Jackson Cath; Lawton Rebecca J; McEachan Rosemary RC; Lunt Jennifer

    2008-01-01

    Abstract Background The workplace is an ideal setting for health promotion. Helping employees to be more physically active can not only improve their physical and mental health, but can also have economic benefits such as reduced sickness absence. The current paper describes the development of a three month theory-based intervention that aims to increase levels of moderate intensity physical activity amongst employees in sedentary occupations. Methods The intervention was developed using an i...

  3. Mapping university students' epistemic framing of computational physics using network analysis

    Science.gov (United States)

    Bodin, Madelen

    2012-06-01

    Solving physics problem in university physics education using a computational approach requires knowledge and skills in several domains, for example, physics, mathematics, programming, and modeling. These competences are in turn related to students’ beliefs about the domains as well as about learning. These knowledge and beliefs components are referred to here as epistemic elements, which together represent the students’ epistemic framing of the situation. The purpose of this study was to investigate university physics students’ epistemic framing when solving and visualizing a physics problem using a particle-spring model system. Students’ epistemic framings are analyzed before and after the task using a network analysis approach on interview transcripts, producing visual representations as epistemic networks. The results show that students change their epistemic framing from a modeling task, with expectancies about learning programming, to a physics task, in which they are challenged to use physics principles and conservation laws in order to troubleshoot and understand their simulations. This implies that the task, even though it is not introducing any new physics, helps the students to develop a more coherent view of the importance of using physics principles in problem solving. The network analysis method used in this study is shown to give intelligible representations of the students’ epistemic framing and is proposed as a useful method of analysis of textual data.

  4. Mapping university students’ epistemic framing of computational physics using network analysis

    Directory of Open Access Journals (Sweden)

    Madelen Bodin*

    2012-04-01

    Full Text Available Solving physics problem in university physics education using a computational approach requires knowledge and skills in several domains, for example, physics, mathematics, programming, and modeling. These competences are in turn related to students’ beliefs about the domains as well as about learning. These knowledge and beliefs components are referred to here as epistemic elements, which together represent the students’ epistemic framing of the situation. The purpose of this study was to investigate university physics students’ epistemic framing when solving and visualizing a physics problem using a particle-spring model system. Students’ epistemic framings are analyzed before and after the task using a network analysis approach on interview transcripts, producing visual representations as epistemic networks. The results show that students change their epistemic framing from a modeling task, with expectancies about learning programming, to a physics task, in which they are challenged to use physics principles and conservation laws in order to troubleshoot and understand their simulations. This implies that the task, even though it is not introducing any new physics, helps the students to develop a more coherent view of the importance of using physics principles in problem solving. The network analysis method used in this study is shown to give intelligible representations of the students’ epistemic framing and is proposed as a useful method of analysis of textual data.

  5. The Effect of Using Concept Mapping on Student's Attitude and Achievement When Learning the Physics Topic of Circular and Rotational Motion

    Science.gov (United States)

    Luchembe, Dennis; Chinyama, Kaumba; Jumbe, Jack

    2014-01-01

    The study was conducted to show the effectiveness of concept mapping as a teaching strategy to undergraduate students taking introductory physics course. A number of researchers have investigated the effectiveness of concept mapping on student academic achievement. The main focus of these studies have been on comparing the effectiveness of concept…

  6. Prevalence of Mind Mapping as a Teaching and Learning Strategy in Physical Therapy Curricula

    Science.gov (United States)

    Zipp, Genevieve; Maher, Catherine

    2013-01-01

    Background and Purpose: Regardless of our discipline educators seek to create environments that actively engage students in their learning journey. One teaching and learning strategy that has emerged in higher education is mind mapping (MM). The purpose of this exploratory study was to determine the prevalence of MM usage in a health science…

  7. Physical mapping of a large plant genome using global high-information-content-fingerprinting: the distal region of the wheat ancestor Aegilops tauschii chromosome 3DS

    Directory of Open Access Journals (Sweden)

    You Frank M

    2010-06-01

    Full Text Available Abstract Background Physical maps employing libraries of bacterial artificial chromosome (BAC clones are essential for comparative genomics and sequencing of large and repetitive genomes such as those of the hexaploid bread wheat. The diploid ancestor of the D-genome of hexaploid wheat (Triticum aestivum, Aegilops tauschii, is used as a resource for wheat genomics. The barley diploid genome also provides a good model for the Triticeae and T. aestivum since it is only slightly larger than the ancestor wheat D genome. Gene co-linearity between the grasses can be exploited by extrapolating from rice and Brachypodium distachyon to Ae. tauschii or barley, and then to wheat. Results We report the use of Ae. tauschii for the construction of the physical map of a large distal region of chromosome arm 3DS. A physical map of 25.4 Mb was constructed by anchoring BAC clones of Ae. tauschii with 85 EST on the Ae. tauschii and barley genetic maps. The 24 contigs were aligned to the rice and B. distachyon genomic sequences and a high density SNP genetic map of barley. As expected, the mapped region is highly collinear to the orthologous chromosome 1 in rice, chromosome 2 in B. distachyon and chromosome 3H in barley. However, the chromosome scale of the comparative maps presented provides new insights into grass genome organization. The disruptions of the Ae. tauschii-rice and Ae. tauschii-Brachypodium syntenies were identical. We observed chromosomal rearrangements between Ae. tauschii and barley. The comparison of Ae. tauschii physical and genetic maps showed that the recombination rate across the region dropped from 2.19 cM/Mb in the distal region to 0.09 cM/Mb in the proximal region. The size of the gaps between contigs was evaluated by comparing the recombination rate along the map with the local recombination rates calculated on single contigs. Conclusions The physical map reported here is the first physical map using fingerprinting of a complete

  8. A Road map for Establishing the Physical Protection Regime of Nuclear Materials and Facilities

    International Nuclear Information System (INIS)

    The importance of physical protection for nuclear materials and facilities that can be an objective for terrorists has never been more stressed. The responsibility for physical protection within a State does not rest entirely with that state because cross-border transactions related to nuclear materials increase as nuclear related industries expand. The international community has prepared measures to strengthen the regime of physical protection such as the IAEA's proposal of the 'Nuclear Security Plan for 2006-2009' and UN's resolution on 'the International Convention for the Suppression of Acts of Nuclear Terrorism'. In order to cope with this, Korea has also made efforts to establish the implementation system for physical protection in the field of nuclear industries since the law for Physical Protection of Nuclear Material and Facility and Radiological Emergency Preparedness (LPPREP) was promulgated in 2004. The detailed plans should be prepared to accomplish this. This study has been performed to derive the items for establishing the regime of physical protection. The items derived were classified as short, mid and long-term depending on their characteristics and environmental circumstances. The regime of national physical protection will be established if the studies on these items are carried out successfully and tangible results are obtained

  9. A Bayesian and Physics-Based Ground Motion Parameters Map Generation System

    Science.gov (United States)

    Ramirez-Guzman, L.; Quiroz, A.; Sandoval, H.; Perez-Yanez, C.; Ruiz, A. L.; Delgado, R.; Macias, M. A.; Alcántara, L.

    2014-12-01

    We present the Ground Motion Parameters Map Generation (GMPMG) system developed by the Institute of Engineering at the National Autonomous University of Mexico (UNAM). The system delivers estimates of information associated with the social impact of earthquakes, engineering ground motion parameters (gmp), and macroseismic intensity maps. The gmp calculated are peak ground acceleration and velocity (pga and pgv) and response spectral acceleration (SA). The GMPMG relies on real-time data received from strong ground motion stations belonging to UNAM's networks throughout Mexico. Data are gathered via satellite and internet service providers, and managed with the data acquisition software Earthworm. The system is self-contained and can perform all calculations required for estimating gmp and intensity maps due to earthquakes, automatically or manually. An initial data processing, by baseline correcting and removing records containing glitches or low signal-to-noise ratio, is performed. The system then assigns a hypocentral location using first arrivals and a simplified 3D model, followed by a moment tensor inversion, which is performed using a pre-calculated Receiver Green's Tensors (RGT) database for a realistic 3D model of Mexico. A backup system to compute epicentral location and magnitude is in place. A Bayesian Kriging is employed to combine recorded values with grids of computed gmp. The latter are obtained by using appropriate ground motion prediction equations (for pgv, pga and SA with T=0.3, 0.5, 1 and 1.5 s ) and numerical simulations performed in real time, using the aforementioned RGT database (for SA with T=2, 2.5 and 3 s). Estimated intensity maps are then computed using SA(T=2S) to Modified Mercalli Intensity correlations derived for central Mexico. The maps are made available to the institutions in charge of the disaster prevention systems. In order to analyze the accuracy of the maps, we compare them against observations not considered in the

  10. Theory, evidence and Intervention Mapping to improve behavior nutrition and physical activity interventions

    OpenAIRE

    Ferreira Isabel; Oenema Anke; Brug Johannes

    2005-01-01

    Abstract Background The present paper intends to contribute to the debate on the usefulness and barriers in applying theories in diet and physical activity behavior-change interventions. Discussion Since behavior theory is a reflection of the compiled evidence of behavior research, theory is the only foothold we have for the development of behavioral nutrition and physical activity interventions. Application of theory should improve the effectiveness of interventions. However, some of the the...

  11. A 4.5-megabase YAC contig and physical map over the hemochromatosis gene region

    Energy Technology Data Exchange (ETDEWEB)

    Burt, M.J.; Smit, D.J.; Pyper, W.R.; Powell, L.W.; Jazwinska, E.C. [Univ. of Queensland, Brisbane (Australia)

    1996-04-15

    We have constructed a yeast artificial chromosome (YAC) contig over the candidate hemochromatosis gene region. This contig comprises hemochromatosis gene region. This contig comprises 16 YACs from the CEPH, Washington University, and ICI YAC libraries and covers 4.5 Mb at 6p21.3-6p22. The complete contig has been restriction mapped, enabling the precise relationship between the YACs to be determined and the mapping of a total of 12 STSs. Nine of these are highly polymorphic STSs that are closely linked to hemochromatosis; this series includes D6S265 and D6S1260, which comprise the most proximal and distal markers linked to HC. This is the first YAC contig that spans the hemochromatosis candidate region, and it provides valuable resource material for the cloning of this and other genes in the region distal to the MHC class I complex. 33 refs., 1 fig., 1 tab.

  12. Physical mapping of the paralysis-inducing determinant of a wild mouse ecotropic neurotropic retrovirus.

    OpenAIRE

    DesGroseillers, L; Barrette, M; Jolicoeur, P

    1984-01-01

    We have recently shown that a molecularly cloned ecotropic retrovirus, initially isolated from the brain of a paralyzed wild mouse, retained the ability to induce hind limb paralysis when inoculated into susceptible mice (Jolicoeur et al., J. Virol. 45:1159-1163, 1983). To map the viral DNA sequences encoding the determinant of paralysis, we constructed chimeric viral DNA genomes in vitro between parental cloned infectious viral DNA genomes from this neurotropic murine leukemia virus (MuLV) a...

  13. Physical Properties of the Magellanic Bridge Tidal Remnant through Mapped Hα, [SII], and [NII] Emission

    Science.gov (United States)

    Barger, Kathleen; Haffner, L. Matthew

    2016-01-01

    We present the first kinematically resolved [S II] λ6716 and [N II] λ6583 emission maps of the entire Magellanic Bridge that were observed with the Wisconsin Hα Mapper Telescope. Combining these maps with the complementary Hα maps of Barger et al. (2013), we explore the temperature, sulfur and nitrogen ionization state, and sources of the ionization of the warm-ionized gas in the Magellanic Bridge, the SMC-Tail, and the LMC-Bridge interface region. Within the Magellanic Bridge, we find that the low velocity (+100 to +200 km s-1 ) and the high velocity (+200 to +300 km s-1 ) gas have different properties, suggesting that it is composed of at least two separate and coherent filaments. Within the high-velocity filament, a high-velocity ridge of gas—with different properties from the high-velocity structure—extends along the high-latitude edge of the Hα SMC-Tail to low latitude edge LMC-Bridge interface. This ridge coincides with a strip of early-type stars, suggesting that these stars are influencing this gas. We further find that the properties of both the SMC-Tail and LMC-Bridge interface regions have similar properties and therefore are likely affected by similar ionization sources.

  14. Isolation of candidate genes and physical mapping in the Familial Dysautonomia region of chromosome 9q31

    Energy Technology Data Exchange (ETDEWEB)

    Slaugenhaupt, S.A.; Liebert, C.B.; Monahan, M. [Harvard Medical School, Boston, MA (United States)] [and others

    1994-09-01

    Familial Dysautonomia is an autosomal recessive disorder characterized by the developmental loss of both sensory and autonomic neurons. We have mapped the DYS gene to human chromosome 9q31-33 by genetic linkage analysis of 26 Ashkenazi Jewish pedigrees. The gene is located in a 3 cM interval between D9S310 and D9S105. We have examined several new SSCP and repeat polymorphisms and have successfully narrowed the minimum candidate region to approximately 300 kb using linkage disequilibrium. A YAC contig that spans 1.5 Mb has been constructed using both Alu-PCR and STS screening methods. In addition, the YACs were used to isolate cosmids by direct hybridization to the Lawrence Livermore National Laboratory chromosome 9 flow-sorted cosmid library. Having cloned the minimal candidate region, we are now constructing a detailed transcription map of the DYS region of chromosome 9. Using exon amplification, we have rapidly identified exon sequences and have used these as probes to isolate three candidate genes. These genes are currently being sequenced and will be assessed for mutations using both SSCP analysis and direct sequencing. A detailed physical map of the DYS region, as well as sequence and homology information for DYS candidate genes, will be presented.

  15. Genetic and physical maps around the sex-determining M-locus of the dioecious plant asparagus.

    Science.gov (United States)

    Telgmann-Rauber, Alexa; Jamsari, Ari; Kinney, Michael S; Pires, J Chris; Jung, Christian

    2007-09-01

    Asparagus officinalis L. is a dioecious plant. A region called the M-locus located on a pair of homomorphic sex chromosomes controls the sexual dimorphism in asparagus. The aim of this work was to clone the region determining sex in asparagus from its position in the genome. The structure of the region encompassing M should be investigated and compared to the sex-determining regions in other dioecious model species. To establish an improved basis for physical mapping, a high-resolution genetic map was enriched with AFLP markers closely linked to the target locus by carrying out a bulked segregant analysis. By screening a BAC library with AFLP- and STS-markers followed by chromosome walking, a physical map with eight contigs could be established. However, the gaps between the contigs could not be closed due to a plethora of repetitive elements. Surprisingly, two of the contigs on one side of the M-locus did not overlap although they have been established with two markers, which mapped in a distance as low as 0.25 cM flanking the sex locus. Thus, the clustering of the markers indicates a reduced recombination frequency within the M-region. On the opposite side of the M-locus, a contig was mapped in a distance of 0.38 cM. Four closely linked BAC clones were partially sequenced and 64 putative ORFs were identified. Interestingly, only 25% of the ORFs showed sequence similarity to known proteins and ESTs. In addition, an accumulation of repetitive sequences and a low gene density was revealed in the sex-determining region of asparagus. Molecular cytogenetic and sequence analysis of BACs flanking the M-locus indicate that the BACs contain highly repetitive sequences that localize to centromeric and pericentromeric locations on all asparagus chromosomes, which hindered the localization of the M-locus to the single pair of sex chromosomes. We speculate that dioecious Silene, papaya and Asparagus species may represent three stages in the evolution of XX, XY sex

  16. Genetic and physical maps around the sex-determining M-locus of the dioecious plant asparagus.

    Science.gov (United States)

    Telgmann-Rauber, Alexa; Jamsari, Ari; Kinney, Michael S; Pires, J Chris; Jung, Christian

    2007-09-01

    Asparagus officinalis L. is a dioecious plant. A region called the M-locus located on a pair of homomorphic sex chromosomes controls the sexual dimorphism in asparagus. The aim of this work was to clone the region determining sex in asparagus from its position in the genome. The structure of the region encompassing M should be investigated and compared to the sex-determining regions in other dioecious model species. To establish an improved basis for physical mapping, a high-resolution genetic map was enriched with AFLP markers closely linked to the target locus by carrying out a bulked segregant analysis. By screening a BAC library with AFLP- and STS-markers followed by chromosome walking, a physical map with eight contigs could be established. However, the gaps between the contigs could not be closed due to a plethora of repetitive elements. Surprisingly, two of the contigs on one side of the M-locus did not overlap although they have been established with two markers, which mapped in a distance as low as 0.25 cM flanking the sex locus. Thus, the clustering of the markers indicates a reduced recombination frequency within the M-region. On the opposite side of the M-locus, a contig was mapped in a distance of 0.38 cM. Four closely linked BAC clones were partially sequenced and 64 putative ORFs were identified. Interestingly, only 25% of the ORFs showed sequence similarity to known proteins and ESTs. In addition, an accumulation of repetitive sequences and a low gene density was revealed in the sex-determining region of asparagus. Molecular cytogenetic and sequence analysis of BACs flanking the M-locus indicate that the BACs contain highly repetitive sequences that localize to centromeric and pericentromeric locations on all asparagus chromosomes, which hindered the localization of the M-locus to the single pair of sex chromosomes. We speculate that dioecious Silene, papaya and Asparagus species may represent three stages in the evolution of XX, XY sex

  17. Student facility with ratio and proportion: Mapping the reasoning space in introductory physics

    CERN Document Server

    Boudreaux, Andrew; Brahmia, Suzanne

    2015-01-01

    Six specific modes of reasoning about ratio and proportion have been delineated as a means of operationalizing expert practice. These modes stem from consideration of how physicists reason in context, are informed by prior work in physics and mathematics education, and have grain size matched to the steps in reasoning needed to solve problems commonly used in physics instruction. A suite of assessment questions has been developed and validated to probe student facility with the reasoning modes. Responses to open-ended and multiple-choice versions of the assessment questions have been collected from more than 3000 students at Western Washington University, Rutgers University, and New Mexico State University. Results have been used to identify specific reasoning difficulties, to document differences in performance between student populations, and to explore the effect of question context on student reasoning. We find that students enrolled in university physics courses have difficulty interpreting and applying ...

  18. Contribution of physical modelling to climate-driven landslide hazard mapping: an alpine test site

    Science.gov (United States)

    Vandromme, R.; Desramaut, N.; Baills, A.; Hohmann, A.; Grandjean, G.; Sedan, O.; Mallet, J. P.

    2012-04-01

    The aim of this work is to develop a methodology for integrating climate change scenarios into quantitative hazard assessment and especially their precipitation component. The effects of climate change will be different depending on both the location of the site and the type of landslide considered. Indeed, mass movements can be triggered by different factors. This paper describes a methodology to address this issue and shows an application on an alpine test site. Mechanical approaches represent a solution for quantitative landslide susceptibility and hazard modeling. However, as the quantity and the quality of data are generally very heterogeneous at a regional scale, it is necessary to take into account the uncertainty in the analysis. In this perspective, a new hazard modeling method is developed and integrated in a program named ALICE. This program integrates mechanical stability analysis through a GIS software taking into account data uncertainty. This method proposes a quantitative classification of landslide hazard and offers a useful tool to gain time and efficiency in hazard mapping. However, an expertise approach is still necessary to finalize the maps. Indeed it is the only way to take into account some influent factors in slope stability such as heterogeneity of the geological formations or effects of anthropic interventions. To go further, the alpine test site (Barcelonnette area, France) is being used to integrate climate change scenarios into ALICE program, and especially their precipitation component with the help of a hydrological model (GARDENIA) and the regional climate model REMO (Jacob, 2001). From a DEM, land-cover map, geology, geotechnical data and so forth the program classifies hazard zones depending on geotechnics and different hydrological contexts varying in time. This communication, realized within the framework of Safeland project, is supported by the European Commission under the 7th Framework Programme for Research and Technological

  19. Physical mapping, amplification, and overexpression of the mouse mdr gene family in multidrug-resistant cells.

    OpenAIRE

    Raymond, M; Rose, E.; Housman, D.E.; Gros, P.

    1990-01-01

    The mouse mdr gene family consists of three distinct genes (mdr1, mdr2, and mdr3), for which we have isolated full-length cDNA clones. cDNA subfragments corresponding to discrete regions showing little sequence conservation among the three mdr genes were used as gene-specific DNA probes in hybridization experiments. Long-range mapping by pulse-field gel electrophoresis indicated that the three mdr genes are closely linked on a genomic DNA segment of approximately 625 kilobases. The gene order...

  20. Genetic and physical mapping of AvrPi7, a novel avirulence gene of Magnaporthe oryzae using physical position-ready markers

    Institute of Scientific and Technical Information of China (English)

    FENG ShuJie; WANG Ling; MA JunHong; LIN Fei; PAN QingHua

    2007-01-01

    Rice blast, caused by the fungal pathogen Magnaporthe oryzae, is one of the most devastating crop diseases worldwide. The avirulence gene corresponding to rice blast resistance gene Pi7 in field isolate CHL346 was inherited as a single gene, designated AvrPi7, in a segregating population consisting of 189 ascospore progenies derived from a cross between field isolates CHL346 and CHL42. In order to determine the chromosomal location of the AvrPi7 locus, a total of 121 simple sequence repeat (SSR) markers were developed based on the whole-genome sequence of reference isolate 70-15 of M. oryzae.Linkage analysis of the locus with these SSR markers showed that eight SSR markers on chromosome1 were linked to the locus, among which the closest flanking markers MS1-9 and MS1-15 were 3.2 and 16.4 cM from the locus, respectively. For fine mapping, additional PCR-based makers including eight SSR markers and three candidate avirulence gene (CAG) markers were developed in the region flanking both markers. The AvrPi7 locus was genetically delimited within a 1.6-cM region flanked by markers MS1-21 and MS1-22, and co-segregated with the marker CAG2. To construct a physical map of the AvrPi7 locus, molecular markers linked to the Avr gene were mapped on the supercontigs of the reference isolate 70-15 through bioinformation analysis (BIA). Consequently, the AvrPi7 locus was delimited to a 75-kb interval flanked by markers MS1-21 and MS1-22 based on the reference sequence.Merodiploids observed in this study are also discussed.

  1. Theory, evidence and Intervention Mapping to improve behavior nutrition and physical activity interventions.

    NARCIS (Netherlands)

    J. Brug (Hans); A. Oenema (Anke); A. Ferreira (Isabel)

    2005-01-01

    textabstractBACKGROUND: The present paper intends to contribute to the debate on the usefulness and barriers in applying theories in diet and physical activity behavior-change interventions. DISCUSSION: Since behavior theory is a reflection of the compiled evidence of behavior research, theory is th

  2. Using Concept Mapping to Identify Action Steps for Physical Activity Promotion in Cancer Treatment

    Science.gov (United States)

    Fitzpatrick, Sean Joseph; Zizzi, Sam J.

    2014-01-01

    Background: The benefits of exercise during and after cancer treatment represent research areas that have received increased attention throughout the past 2 decades. Numerous benefits have been observed for cancer survivors who are physically active, yet oncologists have been slow to incorporate exercise counseling into practice. Purpose: The…

  3. A physical interpretation of the cubic map coefficients describing the electron cloud evolution

    OpenAIRE

    Demma, T.; Petracca, S.; Stabile, A.

    2010-01-01

    The Electron Cloud, an undesirable physical phenomena in the accelerators, develops quickly as photons striking the vacuum chamberwall knock out electrons that are then accelerated by the beam, gain energy, and strike the chamber again, producing more electrons. The interaction between the electron cloud and a beam leads to the electron cloud effects such as single- and multi-bunch instability, tune shift, increase of pressure and particularly can limit the ability of recently build or planne...

  4. 3-D mapping with ellipsometrically determined physical thickness/refractive index of spin coated sol–gel silica layer

    Indian Academy of Sciences (India)

    S Das; P Pal; S Roy; S Chakraboarty; P K Biswas

    2002-11-01

    Precursor sol for sol–gel silica layer was prepared from the starting material, tetraethylorthosilicate (TEOS). The sol was deposited onto borosilicate crown (BSC) glass by the spinning technique (rpm 2500). The gel layer thus formed transformed to oxide layer on heating to 450°C for ∼ 30 min. The physical thicknessand the refractive index of the layer were measured ellipsometrically (Rudolph Auto EL II) at 632.8 nm. About 10 × 10 mm surface area of the silica layer was chosen for evaluation of thickness and refractive index values at different points (121 nos.) with 1 mm gap between two points. Those data were utilized in the Autolisp programme for 3-D mapping. Radial distribution of the evaluated values was also displayed.

  5. Representational difference analysis, high-resolution physical mapping, and transcript identification of the zebrafish genomic region for a motor behavior.

    Science.gov (United States)

    Sato, Tomomi; Mishina, Masayoshi

    2003-08-01

    Zebrafish is one of the best model organisms for investigating gene functions in vertebrates. By 4,5',8-trimethylpsoralen mutagenesis, we isolated a zebrafish mutant, vibrato, with defects in the spontaneous contraction and touch response. Whole genome subtraction between the wild-type and the mutant genomes by representational difference analysis yielded polymorphic markers tightly linked to the vibrato locus. Using these markers, we constructed a high-resolution physical map and localized the vibrato locus within a genomic region of 720 kb. Direct cDNA selection with the contig led to the identification of a novel gene, solo, encoding a protein with SEC14 and spectrin repeat domains. These domains of Solo shared significant amino acid sequence identities with those of mammalian Trio and Karilin. In addition, we found the zebrafish orthologs for mammalian TTN, COL5A2, and CED-6 in the vibrato region. Mapping of these genes localized human chromosomal regions possibly involved in motor disorders. Our results suggest that representational difference analysis provides an efficient way to isolate mutated genomic regions in zebrafish. PMID:12837271

  6. A complete physical map of a wild beet (Beta procumbens) translocation in sugar beet.

    Science.gov (United States)

    Schulte, Daniela; Cai, Daguang; Kleine, Michael; Fan, Longjiang; Wang, Sheng; Jung, Christian

    2006-05-01

    Two sugar beet lines carry homologous translocations of the wild beet Beta procumbens. Long-range restriction mapping with rare cutting enzymes revealed that both translocations are different in size, however, an overlapping region of about 350 kb could be identified. Both lines are resistant to the beet cyst nematode but only TR520 carries the previously cloned resistance gene Hs1pro-1. Hence, a second gene for nematode resistance (Hs1-1) must be located within this region. A bacterial artificial chromosome (BAC) library was constructed from line TR520. The library was screened with a number of B. procumbens specific probes and 61 BAC clones were identified. Five BAC clones formed a minimal tiling path of 580 kb to cover the overlapping region between both translocations including the translocation breakpoint. The five BACs from the overlapping region and one additional BAC distal from that contig were sequenced. The total sequence length from the five BACs of the overlapping region amounted to 524 kb which is 74.35% of the total insert size of these BACs. The frequency of retrotransposon sequences ranged between 14.7 and 43.3%. A total of 133 ORFs were identified, none of these showed similarity to known disease resistance genes. Of these, 12 ORFs showed homology to genes involved in biotic stress resistance reactions or to transcription factors. This paper demonstrates how genome specific probes can be employed for cloning an alien gene introgression into a cultivated species.

  7. Fractal Information by Means of Harmonic Mappings and Some Physical Implications

    Directory of Open Access Journals (Sweden)

    Maricel Agop

    2016-04-01

    Full Text Available Considering that the motions of the complex system structural units take place on continuous, but non-differentiable curves, in the frame of the extended scale relativity model (in its Schrödinger-type variant, it is proven that the imaginary part of a scalar potential of velocities can be correlated with the fractal information and, implicitly, with a tensor of “tensions”, which is fundamental in the construction of the constitutive laws of material. In this way, a specific differential geometry based on a Poincaré-type metric of the Lobachevsky plane (which is invariant to the homographic group of transformations and also a specific variational principle (whose field equations represent an harmonic map from the usual space into the Lobachevsky plane are generated. Moreover, fractal information (which is made explicit at any scale resolution is produced, so that the field variables define a gravitational field. This latter situation is specific to a variational principle in the sense of Matzner–Misner and to certain Ernst-type field equations, the fractal information being contained in the material structure and, thus, in its own space associated with it.

  8. Mapping the productive sands of Lower Goru Formation by using seismic stratigraphy and rock physical studies in Sawan area, southern Pakistan: A case study

    KAUST Repository

    Munir, K.

    2011-02-24

    This study has been conducted in the Sawan gas field located in southern Pakistan. The aim of the study is to map the productive sands of the Lower Goru Formation of the study area. Rock physics parameters (bulk modulus, Poisson\\'s ratio) are analysed after a detailed sequence stratigraphic study. Sequence stratigraphy helps to comprehend the depositional model of sand and shale. Conformity has been established between seismic stratigraphy and the pattern achieved from rock physics investigations, which further helped in the identification of gas saturation zones for the reservoir. Rheological studies have been done to map the shear strain occurring in the area. This involves the contouring of shear strain values throughout the area under consideration. Contour maps give a picture of shear strain over the Lower Goru Formation. The identified and the productive zones are described by sands, high reflection strengths, rock physical anomalous areas and low shear strain.

  9. Global map of physical interactions among differentially expressed genes in multiple sclerosis relapses and remissions.

    Science.gov (United States)

    Tuller, Tamir; Atar, Shimshi; Ruppin, Eytan; Gurevich, Michael; Achiron, Anat

    2011-09-15

    Multiple sclerosis (MS) is a central nervous system autoimmune inflammatory T-cell-mediated disease with a relapsing-remitting course in the majority of patients. In this study, we performed a high-resolution systems biology analysis of gene expression and physical interactions in MS relapse and remission. To this end, we integrated 164 large-scale measurements of gene expression in peripheral blood mononuclear cells of MS patients in relapse or remission and healthy subjects, with large-scale information about the physical interactions between these genes obtained from public databases. These data were analyzed with a variety of computational methods. We find that there is a clear and significant global network-level signal that is related to the changes in gene expression of MS patients in comparison to healthy subjects. However, despite the clear differences in the clinical symptoms of MS patients in relapse versus remission, the network level signal is weaker when comparing patients in these two stages of the disease. This result suggests that most of the genes have relatively similar expression levels in the two stages of the disease. In accordance with previous studies, we found that the pathways related to regulation of cell death, chemotaxis and inflammatory response are differentially expressed in the disease in comparison to healthy subjects, while pathways related to cell adhesion, cell migration and cell-cell signaling are activated in relapse in comparison to remission. However, the current study includes a detailed report of the exact set of genes involved in these pathways and the interactions between them. For example, we found that the genes TP53 and IL1 are 'network-hub' that interacts with many of the differentially expressed genes in MS patients versus healthy subjects, and the epidermal growth factor receptor is a 'network-hub' in the case of MS patients with relapse versus remission. The statistical approaches employed in this study enabled us

  10. Physical and genetic map of the major nif gene cluster from Azotobacter vinelandii.

    Science.gov (United States)

    Jacobson, M R; Brigle, K E; Bennett, L T; Setterquist, R A; Wilson, M S; Cash, V L; Beynon, J; Newton, W E; Dean, D R

    1989-02-01

    Determination of a 28,793-base-pair DNA sequence of a region from the Azotobacter vinelandii genome that includes and flanks the nitrogenase structural gene region was completed. This information was used to revise the previously proposed organization of the major nif cluster. The major nif cluster from A. vinelandii encodes 15 nif-specific genes whose products bear significant structural identity to the corresponding nif-specific gene products from Klebsiella pneumoniae. These genes include nifH, nifD, nifK, nifT, nifY, nifE, nifN, nifX, nifU, nifS, nifV, nifW, nifZ, nifM, and nifF. Although there are significant spatial differences, the identified A. vinelandii nif-specific genes have the same sequential arrangement as the corresponding nif-specific genes from K. pneumoniae. Twelve other potential genes whose expression could be subject to nif-specific regulation were also found interspersed among the identified nif-specific genes. These potential genes do not encode products that are structurally related to the identified nif-specific gene products. Eleven potential nif-specific promoters were identified within the major nif cluster, and nine of these are preceded by an appropriate upstream activator sequence. A + T-rich regions were identified between 8 of the 11 proposed nif promoter sequences and their upstream activator sequences. Site-directed deletion-and-insertion mutagenesis was used to establish a genetic map of the major nif cluster.

  11. Physical and genetic map of the major nif gene cluster from Azotobacter vinelandii.

    Science.gov (United States)

    Jacobson, M R; Brigle, K E; Bennett, L T; Setterquist, R A; Wilson, M S; Cash, V L; Beynon, J; Newton, W E; Dean, D R

    1989-02-01

    Determination of a 28,793-base-pair DNA sequence of a region from the Azotobacter vinelandii genome that includes and flanks the nitrogenase structural gene region was completed. This information was used to revise the previously proposed organization of the major nif cluster. The major nif cluster from A. vinelandii encodes 15 nif-specific genes whose products bear significant structural identity to the corresponding nif-specific gene products from Klebsiella pneumoniae. These genes include nifH, nifD, nifK, nifT, nifY, nifE, nifN, nifX, nifU, nifS, nifV, nifW, nifZ, nifM, and nifF. Although there are significant spatial differences, the identified A. vinelandii nif-specific genes have the same sequential arrangement as the corresponding nif-specific genes from K. pneumoniae. Twelve other potential genes whose expression could be subject to nif-specific regulation were also found interspersed among the identified nif-specific genes. These potential genes do not encode products that are structurally related to the identified nif-specific gene products. Eleven potential nif-specific promoters were identified within the major nif cluster, and nine of these are preceded by an appropriate upstream activator sequence. A + T-rich regions were identified between 8 of the 11 proposed nif promoter sequences and their upstream activator sequences. Site-directed deletion-and-insertion mutagenesis was used to establish a genetic map of the major nif cluster. PMID:2644218

  12. Application of an efficient strategy with a phage lambda vector for constructing a physical map of the amyloplast genome of sycamore (Acer pseudoplatanus).

    Science.gov (United States)

    Ngernprasirtsiri, J; Kobayashi, H

    1990-01-01

    Amyloplasts were isolated from a heterotrophic culture cell line of a woody plant, sycamore (Acer pseudoplatanus), and their DNA was purified. Conventional procedures for making a physical map were not easily applicable to the amyloplast DNA, since the yield of DNA was too low and the presence of repeated sequences interfered with the analysis. Therefore, the pieces of amyloplast DNA starting with a few micrograms of DNA were cloned in the lambda Fix vector, which is a derivative of lambda EMBL vectors improved for efficient cloning and gene walking. Cloned DNA fragments were randomly picked, mapped for restriction endonuclease sites by a refined procedure, and combined by overlapping their physical maps. The DNA library was also subjected to screening by gene walking using promoters recognized by T3 and T7 RNA polymerases in the vector to fill the gaps between sequences determined by overlapping the physical maps. In this way, we constructed the entire DNA library and the complete physical map of the amyloplast DNA. The sycamore amyloplast genome was composed of 141.7-kbp nucleotides with the same gene arrangement as that of tobacco chloroplasts.

  13. Physical mapping, expression analysis and polymorphism survey of resistance gene analogues on chromosome 11 of rice

    Indian Academy of Sciences (India)

    Irfan A Ghazi; Prem S Srivastava; Vivek Dalal; Kishor Gaikwad; Ashok K Singh; Tilak R Sharma; Nagendra K Singh; Trilochan Mohapatra

    2009-06-01

    Rice is the first cereal genome with a finished sequence and a model crop that has important syntenic relationships with other cereal species. The objectives of our study were to identify resistance gene analogue (RGA) sequences from chromosome 11 of rice, understand their expression in other cereals and dicots by in silico analysis, determine their presence on other rice chromosomes, and evaluate the extent of polymorphism and actual expression in a set of rice genotypes. A total of 195 RGAs were predicted and physically localised. Of these, 91.79% expressed in rice, and 51.28% expressed in wheat, which was the highest among other cereals. Among monocots, sugarcane showed the highest (78.92%) expression, while among dicots, RGAs were maximally expressed in Arabidopsis (11.79%). Interestingly, two of the chromosome 11-specific RGAs were found to be expressing in all the organisms studied. Eighty RGAs of chromosome 11 had significant homology with chromosome 12, which was the maximum among all the rice chromosomes. Thirty-one per cent of the RGAs used in polymerase chain reaction (PCR) amplification showed polymorphism in a set of rice genotypes. Actual gene expression analysis revealed post-inoculation induction of one RGA in the rice line IRBB-4 carrying the bacterial blight resistance gene Xa-4. Our results have implications for the development of sequence-based markers and functional validation of specific RGAs in rice.

  14. Toward Development of a Whole-genome, BAC/BIBAC-based IntegratedPhysical/Genetic Map of the Cotton Genome Using the Upland Cotton Genetic Standard TM-1: BAC Fingerprinting and Physical Map Contig Construction%利用BAC、BIBAC文库整合构建陆地棉遗传标准系TM 1全基因组的遗传、物理图谱:BAC文库的指纹分析及重叠群构建

    Institute of Scientific and Technical Information of China (English)

    Hong-bin ZHANG; Mi-Kyung LEE; John Z. YU; Russell J. KOHEL; David M. STELLY; Zhan-you XU; Lina COVALEDA; Ke-jiao DING; Liang-tao ZHANG; Cheng-cang WU

    2002-01-01

      We are developing a whole-genome, BAC/BIBAC-based integrated physical/genetic map of the cotton (Gossypium hirsutum L. ) genome using its genetic standard line TM-1 as the reference genotype. Whole-genome physical maps integrated with genetic maps will provide revolutionized tools and platforms for all kinds of genomics research, including large-scale gene mapping, cloning and target DNA marker development.……

  15. Development of Motivate4Change Using the Intervention Mapping Protocol: An Interactive Technology Physical Activity and Medication Adherence Promotion Program for Hospitalized Heart Failure Patients

    OpenAIRE

    Oosterom-Calo, Rony; te Velde, Saskia J; Stut, Wim; Brug, Johannes

    2015-01-01

    Background It is important that heart failure (HF) patients adhere to their medication regimen and engage in physical activity. Evidence shows that adherence to these HF self-management behaviors can be improved with appropriate interventions. Objective To further promote medication adherence and physical activity among HF patients, we developed an intervention for hospitalized HF patients. Methods The intervention mapping protocol was applied in the development of the intervention. This enta...

  16. Comparative mapping of soil physical-chemical and structural parameters at field scale to identify zones of enhanced leaching risk.

    Science.gov (United States)

    Norgaard, Trine; Moldrup, Per; Olsen, Preben; Vendelboe, Anders L; Iversen, Bo V; Greve, Mogens H; Kjaer, Jeanne; de Jonge, Lis W

    2013-01-01

    Preferential flow and particle-facilitated transport through macropores contributes significantly to the transport of strongly sorbing substances such as pesticides and phosphorus. The aim of this study was to perform a field-scale characterization of basic soil physical properties like clay and organic carbon content and investigate whether it was possible to relate these to derived structural parameters such as bulk density and conservative tracer parameters and to actual particle and phosphorus leaching patterns obtained from laboratory leaching experiments. Sixty-five cylindrical soil columns of 20-cm height and 20-cm diameter and bulk soil were sampled from the topsoil in a 15-m × 15-m grid in an agricultural loamy field. Highest clay contents and highest bulk densities were found in the northern part of the field. Leaching experiments with a conservative tracer showed fast 5% tracer arrival times and high tracer recovery percentages from columns sampled from the northern part of the field, and the leached mass of particles and particulate phosphorus was also largest from this area. Strong correlations were obtained between 5% tracer arrival time, tracer recovery, and bulk density, indicating that a few well-aligned and better connected macropores might change the hydraulic conductivity between the macropores and the soil matrix, triggering an onset of preferential flow at lower rain intensities compared with less compacted soil. Overall, a comparison mapping of basic and structural characteristics including soil texture, bulk density, dissolved tracer, particle and phosphorus transport parameters identified the northern one-third of the field as a zone with higher leaching risk. This risk assessment based on parameter mapping from measurements on intact samples was in good agreement with 9 yr of pesticide detections in two horizontal wells and with particle and phosphorus leaching patterns from a distributed, shallow drainage pipe system across the field

  17. Adapted Intervention Mapping: A Strategic Planning Process for Increasing Physical Activity and Healthy Eating Opportunities in Schools via Environment and Policy Change

    Science.gov (United States)

    Belansky, Elaine S.; Cutforth, Nick; Chavez, Robert; Crane, Lori A.; Waters, Emily; Marshall, Julie A.

    2013-01-01

    Background: School environment and policy changes have increased healthy eating and physical activity; however, there has been modest success in translating research ?ndings to practice. The School Environment Project tested whether an adapted version of Intervention Mapping (AIM) resulted in school change. Methods: Using a pair randomized design,…

  18. PHYSICS

    CERN Multimedia

    P. Sphicas

    There have been three physics meetings since the last CMS week: “physics days” on March 27-29, the Physics/ Trigger week on April 23-27 and the most recent physics days on May 22-24. The main purpose of the March physics days was to finalize the list of “2007 analyses”, i.e. the few topics that the physics groups will concentrate on for the rest of this calendar year. The idea is to carry out a full physics exercise, with CMSSW, for select physics channels which test key features of the physics objects, or represent potential “day 1” physics topics that need to be addressed in advance. The list of these analyses was indeed completed and presented in the plenary meetings. As always, a significant amount of time was also spent in reviewing the status of the physics objects (reconstruction) as well as their usage in the High-Level Trigger (HLT). The major event of the past three months was the first “Physics/Trigger week” in Apri...

  19. A five-fold pig bacterial artificial chromosome library:a resource for positional cloning and physical mapping

    Institute of Scientific and Technical Information of China (English)

    LIU Wei; LI Ning; ZHANG Ying; LIU Zhaoliang; GUO Li; WANG Xiaobo; FEI Jing; FENG Jidong; ZHAO Rui; HU Xiaoxiang

    2006-01-01

    A pig BAC library was constructed with genomic DNA from a male Erhualian pig. After partial digestion with Hind Ⅲ or BamH I the fragments obtained were cloned into the pBeloBAC11 vector. The library consists of 184320 clones which stored in 480pieces 384-well plates (20 plates per superpool). A two-step 4-dimension PCR screening system was established to screen the positive clones. An average insert size of 128 kb was estimated from 105 randomly isolated clones, which indicates that the library is more than five times of genomic coverage. For the demonstration of the probability to pick out any unique genes or DNA markers from the library, 10single-copy genes were screened out and the positive clones were yielded between 1 and 8 with an average of 3.6. Positive superpools were obtained for 32 microsatellite markers selected from different regions of pig genome. The number of positive superpools for each marker varies from 1 to 9 with an average of 4.78. This BAC library provides an additional resource for pig physical mapping and gene identification.

  20. Prebiotic Low Sugar Chocolate Dairy Desserts: Physical and Optical Characteristics and Performance of PARAFAC and PCA Preference Map.

    Science.gov (United States)

    Morais, E C; Esmerino, E A; Monteiro, R A; Pinheiro, C M; Nunes, C A; Cruz, A G; Bolini, Helena M A

    2016-01-01

    The addition of prebiotic and sweeteners in chocolate dairy desserts opens up new opportunities to develop dairy desserts that besides having a lower calorie intake still has functional properties. In this study, prebiotic low sugar dairy desserts were evaluated by 120 consumers using a 9-point hedonic scale, in relation to the attributes of appearance, aroma, flavor, texture, and overall liking. Internal preference map using parallel factor analysis (PARAFAC) and principal component analysis (PCA) was performed using the consumer data. In addition, physical (texture profile) and optical (instrumental color) analyses were also performed. Prebiotic dairy desserts containing sucrose and sucralose were equally liked by the consumers. These samples were characterized by firmness and gumminess, which can be considered drivers of liking by the consumers. Optimization of the prebiotic low sugar dessert formulation should take in account the choice of ingredients that contribute in a positive manner for these parameters. PARAFAC allowed the extraction of more relevant information in relation to PCA, demonstrating that consumer acceptance analysis can be evaluated by simultaneously considering several attributes. Multiple factor analysis reported Rv value of 0.964, suggesting excellent concordance for both methods. PMID:26613361

  1. Physical mapping of 5S and 18S ribosomal DNA in three species of Agave (Asparagales, Asparagaceae

    Directory of Open Access Journals (Sweden)

    Victor Manuel Gomez-Rodriguez

    2013-08-01

    Full Text Available Agave Linnaeus, 1753 is endemic of America and is considered one of the most important crops in Mexico due to its key role in the country’s economy. Cytogenetic analysis was carried out in A. tequilana Weber, 1902 ‘Azul’, A. cupreata Trelease et Berger, 1915 and A. angustifolia Haworth, 1812. The analysis showed that in all species the diploid chromosome number was 2n = 60, with bimodal karyotypes composed of five pairs of large chromosomes and 25 pairs of small chromosomes. Furthermore, different karyotypical formulae as well as a secondary constriction in a large chromosome pair were found in all species. Fluorescent in situ hybridization (FISH was used for physical mapping of 5S and 18S ribosomal DNA (rDNA. All species analyzed showed that 5S rDNA was located in both arms of a small chromosome pair, while 18S rDNA was associated with the secondary constriction of a large chromosome pair. Data of FISH analysis provides new information about the position and number of rDNA loci and helps for detection of hybrids in breeding programs as well as evolutionary studies.

  2. THE BLIND STUDENT AND HIS BODY FEELINGS: WAYS OF BEING AND PERCEIVING THE SCHOOL THROUGH TACTILE MAPS DURING PHYSICAL EDUCATION CLASSES

    Directory of Open Access Journals (Sweden)

    Ruy Antônio Wanderley Rodrigues de Miranda

    2016-03-01

    Full Text Available Historically, physical education in Brazil has been coming through a long process for achieving its position in regular schools. Conquering this place is owed to a large set of debates about the most varied pedagogical concepts.  This study aims at analyzing the body feelings of a blind student and phenomenologically describing this student’s perceptions of school spaces when influenced by the use of tactile maps. The study adopted a qualitative approach from a theoretical-methodological perspective of the case study with phenomenological-existential inspiration.  Based on the dialogues in this study, the authors understood that tactile maps, mediated by the student’s body feelings, represented significant importance to boost memorization of school spaces. This allowed more reliable guidance and safer mobility to that blind student and his own challenges of overcoming physical and attitudinal barriers when he needed to move around daily at school and during physical education classes.

  3. PHYSICS

    CERN Multimedia

    D. Acosta

    2010-01-01

    A remarkable amount of progress has been made in Physics since the last CMS Week in June given the exponential growth in the delivered LHC luminosity. The first major milestone was the delivery of a variety of results to the ICHEP international conference held in Paris this July. For this conference, CMS prepared 15 Physics Analysis Summaries on physics objects and 22 Summaries on new and interesting physics measurements that exploited the luminosity recorded by the CMS detector. The challenge was incorporating the largest batch of luminosity that was delivered only days before the conference (300 nb-1 total). The physics covered from this initial running period spanned hadron production measurements, jet production and properties, electroweak vector boson production, and even glimpses of the top quark. Since then, the accumulated integrated luminosity has increased by a factor of more than 100, and all groups have been working tremendously hard on analysing this dataset. The September Physics Week was held ...

  4. A physical map of 15 loci on human chromosome 5q23-q33 by two-color fluorescence in situ hybridization

    Energy Technology Data Exchange (ETDEWEB)

    Saltman, D.L.; Dolganov, G.M. (Genelabs Inc. Redwood City, CA (United States)); Warrington, J.A.; Wasmuth, J.J. (Univ. of California, Irvine (United States)); Lovett, M. (Univ. of Texas Southwestern Medical Center, Dallas (United States))

    1993-06-01

    The q23-q33 region of human chromosome 5 encodes a large number of growth factors, growth factor receptors, and hormone/neurotransmitter receptors. This is also the general region into which several disease genes have been mapped, including diastrophic dysplasia, Treacher Collins syndrome, hereditary startle disease, the myeloid disorders that are associated with the 5q-syndrome, autosomal-dominant forms of hereditary deafness, and limb girdle muscular dystrophy. The authors have developed a framework physical map of this region using cosmid clones isolated from the Los Alamos arrayed chromosome 5-specific library. Entry points into this library included 14 probes to genes within this interval and one anonymous polymorphic marker locus. A physical map has been constructed using fluorescence in situ hybridization of these cosmids on metaphase and interphase chromosomes, and this is in good agreement with the radiation hybrid map of the region. The derived order of loci across the region is cen-IL4-IL5-IRF1-IL3-IL9-EGR1-CD14-FGFA-GRL-D5S207-ADRB2-SPARC-RPS14-CSF1R-ADRA1, and the total distance spanned by these loci is approximately 15 Mb. The framework map, genomic clones, and contig expansion within 5q23-q33 should provide valuable resources for the eventual isolation of the clinically relevant loci that reside in this region. 31 refs., 3 figs., 2 tabs.

  5. PHYSICS

    CERN Multimedia

    P. Sphicas

    The CPT project came to an end in December 2006 and its original scope is now shared among three new areas, namely Computing, Offline and Physics. In the physics area the basic change with respect to the previous system (where the PRS groups were charged with detector and physics object reconstruction and physics analysis) was the split of the detector PRS groups (the old ECAL-egamma, HCAL-jetMET, Tracker-btau and Muons) into two groups each: a Detector Performance Group (DPG) and a Physics Object Group. The DPGs are now led by the Commissioning and Run Coordinator deputy (Darin Acosta) and will appear in the correspond¬ing column in CMS bulletins. On the physics side, the physics object groups are charged with the reconstruction of physics objects, the tuning of the simulation (in collaboration with the DPGs) to reproduce the data, the provision of code for the High-Level Trigger, the optimization of the algorithms involved for the different physics analyses (in collaboration with the analysis gr...

  6. PHYSICS

    CERN Multimedia

    J. Incandela

    There have been numerous developments in the physics area since the September CMS week. The biggest single event was the Physics/Trigger week in the end of Octo¬ber, whereas in terms of ongoing activities the “2007 analyses” went into high gear. This was in parallel with participation in CSA07 by the physics groups. On the or¬ganizational side, the new conveners of the physics groups have been selected, and a new database for man¬aging physics analyses has been deployed. Physics/Trigger week The second Physics-Trigger week of 2007 took place during the week of October 22-26. The first half of the week was dedicated to working group meetings. The ple¬nary Joint Physics-Trigger meeting took place on Wednesday afternoon and focused on the activities of the new Trigger Studies Group (TSG) and trigger monitoring. Both the Physics and Trigger organizations are now focused on readiness for early data-taking. Thus, early trigger tables and preparations for calibr...

  7. A 1. 8-Mb YAC contig in Xp11. 23: Identification of Cpg islands and physical mapping of CA repeats in a region of high gene density

    Energy Technology Data Exchange (ETDEWEB)

    Coleman, M.P.; Nemeth, A.H.; Campbell, L.; Raut, C.P.; Davies, K.E. (Institute of Molecular Medicine, Oxford (United Kingdom)); Weissenbach, J. (Unite de Genetique Moleculaire Humaine, Paris (France))

    1994-05-15

    The genes ARAF1, SYN1, TIMP, and PFC are clustered within 70 kb of one another, and, as reported in the accompanying paper, at least four more genes map within 400 kb: a cluster of Krueppel-type zinc finger genes (including ZNF21, ZNF41, and ZNF81) and ELK-1, a member of the ets oncogene superfamily. This gene-rich region is of particular interest because of the large number of disease genes mapping to Xp11.23: At least three eye diseases (retinitis pigmentosa type 2, congenital stationary night blindness CSNB1, and Aland Island eye disease), Wiskott-Aldrich syndrome, X-linked nephrolithiasis, and a translocation breakpoint associated with synovial sarcoma. The authors have constructed a 1.8-Mb YAC contig in this region, confirming the link between TIMP and OATL1 reported by Knight et al. (1994) and extending the map in the distal direction. To investigate the likelihood that more genes are located within this region, they have carried out detailed mapping of rare-cutter restriction sites in these YACs and identified seven CpG islands. At least six of these islands are located over 50 kb from any known gene locations, suggesting that the region contains at least this many as yet unidentified genes. They have also mapped the physical locations of six highly polymorphic CA repeats within the contig, thus integrating the physical, genetic, and transcriptional maps of the region and facilitating the mapping and identification of disease genes. Together with the report by Knight et al., these data indicate the following order of loci: Xpter-DXS1264-DXS1055-DXS1003-DXS1146-DXS1266-(ZNF41, ARAF1)-SYN1 CA repeat-SYN1 (3[prime] end)-TIMP-SYN1 (5[prime] end)-PFC CA repeat-PFC-(DXS426, ELK1)-(DXS1265, ZNF81)-ZNF21-DXS1267-OATL1-Xcen. 40 refs., 4 figs., 3 tabs.

  8. PHYSICS

    CERN Multimedia

    Submitted by

    Physics Week: plenary meeting on physics groups plans for startup (14–15 May 2008) The Physics Objects (POG) and Physics Analysis (PAG) Groups presented their latest developments at the plenary meeting during the Physics Week. In the presentations particular attention was given to startup plans and readiness for data-taking. Many results based on the recent cosmic run were shown. A special Workshop on SUSY, described in a separate section, took place the day before the plenary. At the meeting, we had also two special DPG presentations on “Tracker and Muon alignment with CRAFT” (Ernesto Migliore) and “Calorimeter studies with CRAFT” (Chiara Rovelli). We had also a report from Offline (Andrea Rizzi) and Computing (Markus Klute) on the San Diego Workshop, described elsewhere in this bulletin. Tracking group (Boris Mangano). The level of sophistication of the tracking software increased significantly over the last few months: V0 (K0 and Λ) reconstr...

  9. Physical and genetic mapping of the CMT4A locus and exclusion of PMP-2 as the defect in CMT4A

    Energy Technology Data Exchange (ETDEWEB)

    Othmane, K.B.; Loeb, D.; Roses, A.D.; Pericak-Vance, M.A.; Vance, J.M. [Duke Univ. Medical Center, Durham, NC (United States)] [and others

    1995-07-20

    We have previously localized one form of the autosomal recessive Charcot-Marie-Tooth disease type 4 (CMT4A) to a 5-cM region of chromosome 8q13-q21. We now report the formation of a 7-Bp YAC contig spanning the region. This contig was used to map nine additional microsatellites and six STSs to this region, and subsequent haplotype analysis has narrowed the CMT4A flanking interval to less than 1 cM. In addition, using SSCP and our physical map, we have demonstrated that the myelin protein PMP-2, mapped by FISH to this region, is not the defect in CMT4A. 27 refs., 3 figs., 1 tab.

  10. PHYSICS

    CERN Multimedia

    D. Futyan

    A lot has transpired on the “Physics” front since the last CMS Bulletin. The summer was filled with preparations of new Monte Carlo samples based on CMSSW_3, the finalization of all the 10 TeV physics analyses [in total 50 analyses were approved] and the preparations for the Physics Week in Bologna. A couple weeks later, the “October Exercise” commenced and ran through an intense two-week period. The Physics Days in October were packed with a number of topics that are relevant to data taking, in a number of “mini-workshops”: the luminosity measurement, the determination of the beam spot and the measurement of the missing transverse energy (MET) were the three main topics.   Physics Week in Bologna The second physics week in 2009 took place in Bologna, Italy, on the week of Sep 7-11. The aim of the week was to review and establish (we hoped) the readiness of CMS to do physics with the early collisions at the LHC. The agenda of the...

  11. PHYSICS

    CERN Multimedia

    D. Futyan

    A lot has transpired on the “Physics” front since the last CMS Bulletin. The summer was filled with preparations of new Monte Carlo samples based on CMSSW_3, the finalization of all the 10 TeV physics analyses [in total 50 analyses were approved] and the preparations for the Physics Week in Bologna. A couple weeks later, the “October Exercise” commenced and ran through an intense two-week period. The Physics Days in October were packed with a number of topics that are relevant to data taking, in a number of “mini-workshops”: the luminosity measurement, the determination of the beam spot and the measurement of the missing transverse energy (MET) were the three main topics.  Physics Week in Bologna The second physics week in 2009 took place in Bologna, Italy, on the week of Sep 7-11. The aim of the week was to review and establish how ready we are to do physics with the early collisions at the LHC. The agenda of the week was thus pac...

  12. Applying the Intervention Mapping protocol to develop a kindergarten-based, family-involved intervention to increase European preschool children's physical activity levels: the ToyBox-study.

    Science.gov (United States)

    De Craemer, M; De Decker, E; De Bourdeaudhuij, I; Verloigne, M; Duvinage, K; Koletzko, B; Ibrügger, S; Kreichauf, S; Grammatikaki, E; Moreno, L; Iotova, V; Socha, P; Szott, K; Manios, Y; Cardon, G

    2014-08-01

    Although sufficient physical activity is beneficial for preschoolers' health, activity levels in most preschoolers are low. As preschoolers spend a considerable amount of time at home and at kindergarten, interventions should target both environments to increase their activity levels. The aim of the current paper was to describe the six different steps of the Intervention Mapping protocol towards the systematic development and implementation of the physical activity component of the ToyBox-intervention. This intervention is a kindergarten-based, family-involved intervention implemented across six European countries. Based on the results of literature reviews and focus groups with parents/caregivers and kindergarten teachers, matrices of change objectives were created. Then, theory-based methods and practical strategies were selected to develop intervention materials at three different levels: (i) individual level (preschoolers); (ii) interpersonal level (parents/caregivers) and (iii) organizational level (teachers). This resulted in a standardized intervention with room for local and cultural adaptations in each participating country. Although the Intervention Mapping protocol is a time-consuming process, using this systematic approach may lead to an increase in intervention effectiveness. The presented matrices of change objectives are useful for future programme planners to develop and implement an intervention based on the Intervention Mapping protocol to increase physical activity levels in preschoolers.

  13. PHYSICS

    CERN Multimedia

    Joe Incandela

    There have been two plenary physics meetings since the December CMS week. The year started with two workshops, one on the measurements of the Standard Model necessary for “discovery physics” as well as one on the Physics Analysis Toolkit (PAT). Meanwhile the tail of the “2007 analyses” is going through the last steps of approval. It is expected that by the end of January all analyses will have converted to using the data from CSA07 – which include the effects of miscalibration and misalignment. January Physics Days The first Physics Days of 2008 took place on January 22-24. The first two days were devoted to comprehensive re¬ports from the Detector Performance Groups (DPG) and Physics Objects Groups (POG) on their planning and readiness for early data-taking followed by approvals of several recent studies. Highlights of POG presentations are included below while the activities of the DPGs are covered elsewhere in this bulletin. January 24th was devo...

  14. PHYSICS

    CERN Multimedia

    J. Incandela

    The all-plenary format of the CMS week in Cyprus gave the opportunity to the conveners of the physics groups to present the plans of each physics analysis group for tackling early physics analyses. The presentations were complete, so all are encouraged to browse through them on the Web. There is a wealth of information on what is going on, by whom and on what basis and priority. The CMS week was followed by two CMS “physics events”, the ICHEP08 days and the physics days in July. These were two weeks dedicated to either the approval of all the results that would be presented at ICHEP08, or to the review of all the other Monte-Carlo based analyses that were carried out in the context of our preparations for analysis with the early LHC data (the so-called “2008 analyses”). All this was planned in the context of the beginning of a ramp down of these Monte Carlo efforts, in anticipation of data.  The ICHEP days are described below (agenda and talks at: http://indic...

  15. Physics

    CERN Document Server

    Cullen, Katherine

    2005-01-01

    Defined as the scientific study of matter and energy, physics explains how all matter behaves. Separated into modern and classical physics, the study attracts both experimental and theoretical physicists. From the discovery of the process of nuclear fission to an explanation of the nature of light, from the theory of special relativity to advancements made in particle physics, this volume profiles 10 pioneers who overcame tremendous odds to make significant breakthroughs in this heavily studied branch of science. Each chapter contains relevant information on the scientist''s childhood, research, discoveries, and lasting contributions to the field and concludes with a chronology and a list of print and Internet references specific to that individual.

  16. PHYSICS

    CERN Multimedia

    Chris Hill

    2012-01-01

    The months that have passed since the last CMS Bulletin have been a very busy and exciting time for CMS physics. We have gone from observing the very first 8TeV collisions produced by the LHC to collecting a dataset of the collisions that already exceeds that recorded in all of 2011. All in just a few months! Meanwhile, the analysis of the 2011 dataset and publication of the subsequent results has continued. These results come from all the PAGs in CMS, including searches for the Higgs boson and other new phenomena, that have set the most stringent limits on an ever increasing number of models of physics beyond the Standard Model including dark matter, Supersymmetry, and TeV-scale gravity scenarios, top-quark physics where CMS has overtaken the Tevatron in the precision of some measurements, and bottom-quark physics where CMS made its first discovery of a new particle, the Ξ*0b baryon (candidate event pictured below). Image 2:  A Ξ*0b candidate event At the same time POGs and PAGs...

  17. PHYSICS

    CERN Multimedia

    Guenther Dissertori

    The time period between the last CMS week and this June was one of intense activity with numerous get-together targeted at addressing specific issues on the road to data-taking. The two series of workshops, namely the “En route to discoveries” series and the “Vertical Integration” meetings continued.   The first meeting of the “En route to discoveries” sequence (end 2007) had covered the measurements of the Standard Model signals as necessary prerequisite to any claim of signals beyond the Standard Model. The second meeting took place during the Feb CMS week and concentrated on the commissioning of the Physics Objects, whereas the third occurred during the April Physics Week – and this time the theme was the strategy for key new physics signatures. Both of these workshops are summarized below. The vertical integration meetings also continued, with two DPG-physics get-togethers on jets and missing ET and on electrons and photons. ...

  18. PHYSICS

    CERN Multimedia

    D. Acosta

    2011-01-01

    Since the last CMS Week, all physics groups have been extremely active on analyses based on the full 2010 dataset, with most aiming for a preliminary measurement in time for the winter conferences. Nearly 50 analyses were approved in a “marathon” of approval meetings during the first two weeks of March, and the total number of approved analyses reached 90. The diversity of topics is very broad, including precision QCD, Top, and electroweak measurements, the first observation of single Top production at the LHC, the first limits on Higgs production at the LHC including the di-tau final state, and comprehensive searches for new physics in a wide range of topologies (so far all with null results unfortunately). Most of the results are based on the full 2010 pp data sample, which corresponds to 36 pb-1 at √s = 7 TeV. This report can only give a few of the highlights of a very rich physics program, which is listed below by physics group...

  19. PHYSICS

    CERN Multimedia

    C. Hill

    2012-01-01

      The period since the last CMS Bulletin has been historic for CMS Physics. The pinnacle of our physics programme was an observation of a new particle – a strong candidate for a Higgs boson – which has captured worldwide interest and made a profound impact on the very field of particle physics. At the time of the discovery announcement on 4 July, 2012, prominent signals were observed in the high-resolution H→γγ and H→ZZ(4l) modes. Corroborating excess was observed in the H→W+W– mode as well. The fermionic channel analyses (H→bb, H→ττ), however, yielded less than the Standard Model (SM) expectation. Collectively, the five channels established the signal with a significance of five standard deviations. With the exception of the diphoton channel, these analyses have all been updated in the last months and several new channels have been added. With improved analyses and more than twice the i...

  20. PHYSICS

    CERN Multimedia

    D. Acosta

    2010-01-01

    The Physics Groups are actively engaged on analyses of the first data from the LHC at 7 TeV, targeting many results for the ICHEP conference taking place in Paris this summer. The first large batch of physics approvals is scheduled for this CMS Week, to be followed by four more weeks of approvals and analysis updates leading to the start of the conference in July. Several high priority analysis areas were organized into task forces to ensure sufficient coverage from the relevant detector, object, and analysis groups in the preparation of these analyses. Already some results on charged particle correlations and multiplicities in 7 TeV minimum bias collisions have been approved. Only one small detail remains before ICHEP: further integrated luminosity delivered by the LHC! Beyond the Standard Model measurements that can be done with these data, the focus changes to the search for new physics at the TeV scale and for the Higgs boson in the period after ICHEP. Particle Flow The PFT group is focusing on the ...

  1. PHYSICS

    CERN Multimedia

    Darin Acosta

    2010-01-01

    The collisions last year at 900 GeV and 2.36 TeV provided the long anticipated collider data to the CMS physics groups. Quite a lot has been accomplished in a very short time. Although the delivered luminosity was small, CMS was able to publish its first physics paper (with several more in preparation), and commence the commissioning of physics objects for future analyses. Many new performance results have been approved in advance of this CMS Week. One remarkable outcome has been the amazing agreement between out-of-the-box data with simulation at these low energies so early in the commissioning of the experiment. All of this is testament to the hard work and preparation conducted beforehand by many people in CMS. These analyses could not have happened without the dedicated work of the full collaboration on building and commissioning the detector, computing, and software systems combined with the tireless work of many to collect, calibrate and understand the data and our detector. To facilitate the efficien...

  2. PHYSICS

    CERN Multimedia

    C. Hill

    2012-01-01

      2012 has started off as a very busy year for the CMS Physics Groups. Planning for the upcoming higher luminosity/higher energy (8 TeV) operation of the LHC and relatively early Rencontres de Moriond are the high-priority activities for the group at the moment. To be ready for the coming 8-TeV data, CMS has made a concerted effort to perform and publish analyses on the 5 fb−1 dataset recorded in 2011. This has resulted in the submission of 16 papers already, including nine on the search for the Higgs boson. In addition, a number of preliminary results on the 2011 dataset have been released to the public. The Exotica and SUSY groups approved several searches for new physics in January, such as searches for W′ and exotic highly ionising particles. These were highlighted at a CERN seminar given on 24th  January. Many more analyses, from all the PAGs, including the newly formed SMP (Standard Model Physics) and FSQ (Forward and Small-x QCD), were approved in February. The ...

  3. PHYSICS

    CERN Multimedia

    L. Demortier

    Physics-wise, the CMS week in December was dominated by discussions of the analyses that will be carried out in the “next six months”, i.e. while waiting for the first LHC collisions.  As presented in December, analysis approvals based on Monte Carlo simulation were re-opened, with the caveat that for this work to be helpful to the goals of CMS, it should be carried out using the new software (CMSSW_2_X) and associated samples.  By the end of the week, the goal for the physics groups was set to be the porting of our physics commissioning methods and plans, as well as the early analyses (based an integrated luminosity in the range 10-100pb-1) into this new software. Since December, the large data samples from CMSSW_2_1 were completed. A big effort by the production group gave a significant number of events over the end-of-year break – but also gave out the first samples with the fast simulation. Meanwhile, as mentioned in December, the arrival of 2_2 meant that ...

  4. PHYSICS

    CERN Multimedia

    the PAG conveners

    2011-01-01

    The delivered LHC integrated luminosity of more than 1 inverse femtobarn by summer and more than 5 by the end of 2011 has been a gold mine for the physics groups. With 2011 data, we have submitted or published 14 papers, 7 others are in collaboration-wide review, and 75 Physics Analysis Summaries have been approved already. They add to the 73 papers already published based on the 2010 and 2009 datasets. Highlights from each physics analysis group are described below. Heavy ions Many important results have been obtained from the first lead-ion collision run in 2010. The published measurements include the first ever indications of Υ excited state suppression (PRL synopsis), long-range correlation in PbPb, and track multiplicity over a wide η range. Preliminary results include the first ever measurement of isolated photons (showing no modification), J/ψ suppression including the separation of the non-prompt component, further study of jet fragmentation, nuclear modification factor...

  5. Precise localization of multiple epiphyseal dysplasia and pseudoachondroplasia mutations by genetic and physical mapping of chromosome 19

    Energy Technology Data Exchange (ETDEWEB)

    Knowlton, R.G.; Cekleniak, J.A. [Jefferson Medical College, Philadelphia, PA (United States); Cohn, D.H. [Cedars-Sinai Medical Center, Los Angeles, CA (United States)] [and others

    1994-09-01

    Multiple epiphyseal dysplasia (EDM1), a dominantly inherited chondrodysplasia resulting in peripheral joint deformities and premature osteoarthritis, and pseudoachondroplasia (PSACH), a more severe disorder associated with short-limbed dwarfism, have recently been mapped to the pericentromeric region of chromosome 19. Chondrocytes from some PSACH patients accumulate lamellar deposits in the endoplasmic reticulum that are immunologically cross-reactive with aggrecan. However, neither aggrecan nor any known candidate gene maps to the EDM1/PSACH region of chromosome 19. Genetic linkage mapping in two lage families had placed the disease locus between D19S215 (19p12) and D19S212 (19p13.1), an interval of about 3.5 Mb. With at least five potentially informative cross-overs within this interval, recombination mapping at greater resolution was undertaken. From cosmids assigned to the region by fluorescence in situ hybridization and contig assembly, dinucleotide repeat tracts were identified for use as polymorphic genetic markers. Linkage data from three new dinucleotide repeat markers from cosmids mapped between D19S212 and D19S215 limit the EDM1/PSACH locus to an interval spanning approximately 2 Mb.

  6. Genetic and physical mapping at the limb-girdle muscular dystrophy locus (LGMD2B) on chromosome 2p

    Energy Technology Data Exchange (ETDEWEB)

    Bashir, R.; Keers, S.; Strachan, T. [Univ. of Newcastle upon Tyne (United Kingdom)] [and others

    1996-04-01

    The limb-girdle muscular dystrophies (LGMD) are a genetically heterogeneous group of disorders, different forms of which have been mapped to at least six distinct genetic loci. We have mapped to at least six distinct genetic loci. We have mapped an autosomal recessive form of LGMD (LGMD2B) to chromosome 2p13. Two other conditions have been shown to map to this region or to the homologous region in mouse: a gene for a form of autosomal recessive distal muscular dystrophy, Miyoshi myopathy, shows linkage to the same markers on chromosome 2p as LGMD2B, and an autosomal recessive mouse mutation mnd2, in which there is rapidly progressive paralysis and muscle atrophy, has been mapped to mouse chromosome 6 to a region showing conserved synteny with human chromosome 2p12-p13. We have assembled a 6-cM YAC contig spanning the LGMD2B locus and have mapped seven genes and 13 anonymous polymorphic microsatellites to it. Using haplotype analysis in the linked families, we have narrowed our region of interest to a 0-cM interval between D2S2113 and D2S145, which does not overlap with the critical region for mnd2 in mouse. Use of these most closely linked markers will help to determine the relationship between LGMD2B and Miyoshi myopathy. YACs selected from our contig will be the starting point for the cloning of the LGMD2B gene and thereby establish the biological basis for this form of muscular dystrophy and its relationship with the other limb-girdle muscular dystrophies. 26 refs., 6 figs.

  7. Identification of candidate genes for drought stress tolerance in rice by the integration of a genetic (QTL) map with the rice genome physical map

    Institute of Scientific and Technical Information of China (English)

    WANG Xu-sheng; ZHU Jun; MANSUETO Locedie; BRUSKIEWICH Richard

    2005-01-01

    Genetic improvement for drought stress tolerance in rice involves the quantitative nature of the trait, which reflects the additive effects of several genetic loci throughout the genome. Yield components and related traits under stressed and well-water conditions were assayed in mapping populations derived from crosses of Azucena×IR64 and Azucena×Bala. To find the candidate rice genes underlying Quantitative Trait Loci (QTL) in these populations, we conducted in silico analysis of a candidate region flanked by the genetic markers RM212 and RM319on chromosome 1, proximal to the semi-dwarf (sd1) locus. A total of 175annotated genes were identified from this region. These included 48 genes annotated by functional homology to known genes, 23pseudogenes, 24 ab initio predicted genes supported by an alignment match to an EST (Expressed sequence tag) of unknown function, and 80 hypothetical genes predicted solely by ab initio means. Among these, 16 candidate genes could potentially be involved in drought stress response.

  8. PHYSICS

    CERN Multimedia

    J. D'Hondt

    The Electroweak and Top Quark Workshop (16-17th of July) A Workshop on Electroweak and Top Quark Physics, dedicated on early measurements, took place on 16th-17th July. We had more than 40 presentations at the Workshop, which was an important milestone for 2007 physics analyses in the EWK and TOP areas. The Standard Model has been tested empirically by many previous experiments. Observables which are nowadays known with high precision will play a major role for data-based CMS calibrations. A typical example is the use of the Z to monitor electron and muon reconstruction in di-lepton inclusive samples. Another example is the use of the W mass as a constraint for di-jets in the kinematic fitting of top-quark events, providing information on the jet energy scale. The predictions of the Standard Model, for what concerns proton collisions at the LHC, are accurate to a level that the production of W/Z and top-quark events can be used as a powerful tool to commission our experiment. On the other hand the measure...

  9. PHYSICS

    CERN Multimedia

    Christopher Hill

    2013-01-01

    Since the last CMS Bulletin, the CMS Physics Analysis Groups have completed more than 70 new analyses, many of which are based on the complete Run 1 dataset. In parallel the Snowmass whitepaper on projected discovery potential of CMS for HL-LHC has been completed, while the ECFA HL-LHC future physics studies has been summarised in a report and nine published benchmark analyses. Run 1 summary studies on b-tag and jet identification, quark-gluon discrimination and boosted topologies have been documented in BTV-13-001 and JME-13-002/005/006, respectively. The new tracking alignment and performance papers are being prepared for submission as well. The Higgs analysis group produced several new results including the search for ttH with H decaying to ZZ, WW, ττ+bb (HIG-13-019/020) where an excess of ~2.5σ is observed in the like-sign di-muon channel, and new searches for high-mass Higgs bosons (HIG-13-022). Search for invisible Higgs decays have also been performed both using the associ...

  10. PHYSICS

    CERN Multimedia

    C. Hill

    2013-01-01

    The period since the last CMS bulletin has seen the end of proton collisions at a centre-of-mass energy 8 TeV, a successful proton-lead collision run at 5 TeV/nucleon, as well as a “reference” proton run at 2.76 TeV. With these final LHC Run 1 datasets in hand, CMS Physics Analysis Groups have been busy analysing these data in preparation for the winter conferences. Moreover, despite the fact that the pp run only concluded in mid-December (and there was consequently less time to complete data analyses), CMS again made a strong showing at the Rencontres de Moriond in La Thuile (EW and QCD) where nearly 40 new results were presented. The highlight of these preliminary results was the eagerly anticipated updated studies of the properties of the Higgs boson discovered in July of last year. Meanwhile, preparations for Run 2 and physics performance studies for Phase 1 and Phase 2 upgrade scenarios are ongoing. The Higgs analysis group produced updated analyses on the full Run 1 dataset (~25 f...

  11. PHYSICS

    CERN Multimedia

    C. Hill

    2013-01-01

    In the period since the last CMS Bulletin, the LHC – and CMS – have entered LS1. During this time, CMS Physics Analysis Groups have performed more than 40 new analyses, many of which are based on the complete 8 TeV dataset delivered by the LHC in 2012 (and in some cases on the full Run 1 dataset). These results were shown at, and well received by, several high-profile conferences in the spring of 2013, including the inaugural meeting of the Large Hadron Collider    Physics Conference (LHCP) in Barcelona, and the 26th International Symposium on Lepton Photon Interactions at High Energies (LP) in San Francisco. In parallel, there have been significant developments in preparations for Run 2 of the LHC and on “future physics” studies for both Phase 1 and Phase 2 upgrades of the CMS detector. The Higgs analysis group produced five new results for LHCP including a new H-to-bb search in VBF production (HIG-13-011), ttH with H to γ&ga...

  12. A physical and expression map of the D17S1810-D17S1353 region spanning the central areolar choroidal dystrophy locus.

    Science.gov (United States)

    Lichanska, A M; McGibbon, D; Silvestri, G; Hughes, A E

    2001-01-01

    Central areolar choroidal dystrophy (CACD) causes bilateral irreversible central visual loss in the 5th to 7th decades. The authors previously described a large pedigree with the disorder, which showed linkage to chromosome 17p13.2-->p13.1 between microsatellite markers D17S1353 and D17S1810. 17p13 is very rich in genes that cause retinal diseases. We have now constructed a detailed and ordered physical map of the critical CACD region which spans up to 2.4 Mb. The new transcript map contains thirteen genes and seven expressed sequence tags (ESTs) that are eye-expressed, and therefore are positional candidates. Several of these have been screened, but no disease-causing mutations were found in CACD patients. PMID:11474177

  13. Real-time Deformation of Detailed Geometry Based on Mappings to a Less Detailed Physical Simulation on the GPU

    DEFF Research Database (Denmark)

    Mosegaard, Jesper; Sørensen, Thomas Sangild

    2005-01-01

    Modern graphics processing units (GPUs) can be effectively used to solve physical systems. To use the GPUoptimally, the discretization of the physical system is often restricted to a regular grid. When grid values representspatial positions, a direct visualization can result in a jagged appearance...... GPU based spring-mass simulation....

  14. The ionized gas in the central region of NGC 5253: 2D mapping of the physical and chemical properties

    CERN Document Server

    Monreal-Ibero, Ana; Vilchez, Jose M

    2012-01-01

    ABRIDGED: NGC5253 was previously studied by our group with the aim to elucidate in detail the starburst interaction processes. Some open issues regarding the 2D structure of the main properties of the ionized gas remain to be addressed. Using IFS data obtained with FLAMES, we derived 2D maps for different tracers of electron density (n_e), electron temperature (T_e) and ionization degree. The maps for n_e as traced by several line ratios are compatible with a 3D stratified view of the nebula with the highest n_e in the innermost layers and a decrease of n_e outwards. To our knowledge, this is the first time that a T_e map based on [SII] lines for an extragalactic object is presented. The joint interpretation of our two T_e maps is consistent with a T_e structure in 3D with higher temperatures close to the main ionizing source surrounded by a colder and more diffuse component. The highest ionization degree is found at the peak of emission for the gas with relatively high ionization in the main GHIIR and lower ...

  15. The use of concept mapping to identify community-driven intervention strategies for physical and mental health.

    Science.gov (United States)

    Vaughn, Lisa M; Jacquez, Farrah; McLinden, Daniel

    2013-09-01

    Research that partners with youth and community stakeholders increases contextual relevance and community buy-in and therefore maximizes the chance for intervention success. Concept mapping is a mixed-method participatory research process that accesses the input of the community in a collaborative manner. After a school-wide health needs assessment at a low-income, minority/immigrant K-8 school identified bullying and obesity as the most important health issues, concept mapping was used to identify and prioritize specific strategies to address these two areas. Stakeholders including 160 K-8 students, 33 college students working in the school, 35 parents, 20 academic partners, and 22 teachers/staff brainstormed strategies to reduce and prevent obesity and bullying. A smaller group of stakeholders worked individually to complete an unstructured sorting of these strategies into groups of similar ideas, once for obesity and again for bullying. Multidimensional scaling and cluster analysis was applied to the sorting data to produce a series of maps that illustrated the stakeholders' conceptual thinking about obesity and bullying prevention strategies. The maps for both obesity and bullying organized specific strategies into themes that included education, parental role, teacher/school supervision, youth role, expert/professional role, and school structure/support. PMID:23099661

  16. Two-dimensional gas chromatography/mass spectrometry, physical property modeling and automated production of component maps to assess the weathering of pollutants.

    Science.gov (United States)

    Antle, Patrick M; Zeigler, Christian D; Livitz, Dimitri G; Robbat, Albert

    2014-10-17

    Local conditions influence how pollutants will weather in subsurface environments and sediment, and many of the processes that comprise environmental weathering are dependent upon these substances' physical and chemical properties. For example, the effects of dissolution, evaporation, and organic phase partitioning can be related to the aqueous solubility (SW), vapor pressure (VP), and octanol-water partition coefficient (KOW), respectively. This study outlines a novel approach for estimating these physical properties from comprehensive two-dimensional gas chromatography-mass spectrometry (GC×GC/MS) retention index-based polyparameter linear free energy relationships (LFERs). Key to robust correlation between GC measurements and physical properties is the accurate and precise generation of retention indices. Our model, which employs isovolatility curves to calculate retention indices, provides improved retention measurement accuracy for families of homologous compounds and leads to better estimates of their physical properties. Results indicate that the physical property estimates produced from this approach have the same error on a logarithmic-linear scale as previous researchers' log-log estimates, yielding a markedly improved model. The model was embedded into a new software program, allowing for automated determination of these properties from a single GC×GC analysis with minimal model training and parameter input. This process produces component maps that can be used to discern the mechanism and progression of how a particular site weathers due to dissolution, organic phase partitioning, and evaporation into the surrounding environment.

  17. A Physical Map, Including a BAC/PAC Clone Contig, of the Williams-Beuren Syndrome–Deletion Region at 7q11.23

    OpenAIRE

    Peoples, Risa; Franke, Yvonne; Wang, Yu-Ker; Pérez-Jurado, Luis; Paperna, Tamar; Cisco, Michael; Francke, Uta

    2000-01-01

    Williams-Beuren syndrome (WBS) is a developmental disorder caused by haploinsufficiency for genes in a 2-cM region of chromosome band 7q11.23. With the exception of vascular stenoses due to deletion of the elastin gene, the various features of WBS have not yet been attributed to specific genes. Although ⩾16 genes have been identified within the WBS deletion, completion of a physical map of the region has been difficult because of the large duplicated regions flanking the deletion. We present ...

  18. Methylation-sensitive linking libraries enhance gene-enriched sequencing of complex genomes and map DNA methylation domains

    Directory of Open Access Journals (Sweden)

    Bharti Arvind K

    2008-12-01

    Full Text Available Abstract Background Many plant genomes are resistant to whole-genome assembly due to an abundance of repetitive sequence, leading to the development of gene-rich sequencing techniques. Two such techniques are hypomethylated partial restriction (HMPR and methylation spanning linker libraries (MSLL. These libraries differ from other gene-rich datasets in having larger insert sizes, and the MSLL clones are designed to provide reads localized to "epigenetic boundaries" where methylation begins or ends. Results A large-scale study in maize generated 40,299 HMPR sequences and 80,723 MSLL sequences, including MSLL clones exceeding 100 kb. The paired end reads of MSLL and HMPR clones were shown to be effective in linking existing gene-rich sequences into scaffolds. In addition, it was shown that the MSLL clones can be used for anchoring these scaffolds to a BAC-based physical map. The MSLL end reads effectively identified epigenetic boundaries, as indicated by their preferential alignment to regions upstream and downstream from annotated genes. The ability to precisely map long stretches of fully methylated DNA sequence is a unique outcome of MSLL analysis, and was also shown to provide evidence for errors in gene identification. MSLL clones were observed to be significantly more repeat-rich in their interiors than in their end reads, confirming the correlation between methylation and retroelement content. Both MSLL and HMPR reads were found to be substantially gene-enriched, with the SalI MSLL libraries being the most highly enriched (31% align to an EST contig, while the HMPR clones exhibited exceptional depletion of repetitive DNA (to ~11%. These two techniques were compared with other gene-enrichment methods, and shown to be complementary. Conclusion MSLL technology provides an unparalleled approach for mapping the epigenetic status of repetitive blocks and for identifying sequences mis-identified as genes. Although the types and natures of

  19. PHYSICS

    CERN Multimedia

    V.Ciulli

    2011-01-01

    The main programme of the Physics Week held between 16th and 20th May was a series of topology-oriented workshops on di-leptons, di-photons, inclusive W, and all-hadronic final states. The goal of these workshops was to reach a common understanding for the set of objects (ID, cleaning...), the handling of pile-up, calibration, efficiency and purity determination, as well as to revisit critical common issues such as the trigger. Di-lepton workshop Most analysis groups use a di-lepton trigger or a combination of single and di-lepton triggers in 2011. Some groups need to collect leptons with as low PT as possible with strong isolation and identification requirements as for Higgs into WW at low mass, others with intermediate PT values as in Drell-Yan studies, or high PT as in the Exotica group. Electron and muon reconstruction, identification and isolation, was extensively described in the workshop. For electrons, VBTF selection cuts for low PT and HEEP cuts for high PT were discussed, as well as more complex d...

  20. Training your brain: Do mental and physical (MAP) training enhance cognition through the process of neurogenesis in the hippocampus?

    OpenAIRE

    Curlik, D.M.; Shors, T. J.

    2012-01-01

    New neurons are produced each day in the hippocampus through the process of neurogenesis. Both mental and physical training can modify this process by increasing the number of new cells that mature into functional neurons in the adult brain. However, the mechanisms whereby these increases occur are not necessarily the same. Physical activity, especially aerobic exercise greatly increases the number of new neurons that are produced in the hippocamal formation. In contrast, mental training via ...

  1. Genetic and physical mapping of the Chediak-Higashi syndrome on chromosome 1q42-43

    Energy Technology Data Exchange (ETDEWEB)

    Barrat, F.J.; Auloge, L.; Pastural, E. [INSERM, Paris (France)] [and others

    1996-09-01

    The Chediak-Higashi syndrome (CHS) is a severe autosomal recessive condition, features of which are partial oculocutaneous albinism, increased susceptibility to infections, deficient natural killer cell activity, and the presence of large intracytoplasmic granulations in various cell types. Similar genetic disorders have been described in other species, including the beige mouse. On the basis of the hypothesis that the murine chromosome 13 region containing the beige locus was homologous to human chromosome 1, we have mapped the CHS locus to a 5-cM interval in chromosome segment 1q42.1-q42.2. The highest LOD score was obtained with the marker D1S235 (Z{sub max} = 5.38; {theta} = 0). Haplotype analysis enabled us to establish D1S2680 and D1S163, respectively, as the telomeric and the centromeric flanking markers. Multipoint linkage analysis confirms the localization of the CHS locus in this interval. Three YAC clones were found to cover the entire region in a contig established by YAC end-sequence characterization and sequence-tagged site mapping. The YAC contig contains all genetic markers that are nonrecombinant for the disease in the nine CHS families studied. This mapping confirms the previous hypothesis that the same gene defect causes CHS in human and beige phenotype in mice and provides a genetic framework for the identification of candidate genes. 36 refs., 4 figs., 1 tab.

  2. Genetic and physical mapping of the Chediak-Higashi syndrome on chromosome 1q42-43.

    Science.gov (United States)

    Barrat, F J; Auloge, L; Pastural, E; Lagelouse, R D; Vilmer, E; Cant, A J; Weissenbach, J; Le Paslier, D; Fischer, A; de Saint Basile, G

    1996-09-01

    The Chediak-Higashi syndrome (CHS) is a severe autosomal recessive condition, features of which are partial oculocutaneous albinism, increased susceptibility to infections, deficient natural killer cell activity, and the presence of large intracytoplasmic granulations in various cell types. Similar genetic disorders have been described in other species, including the beige mouse. On the basis of the hypothesis that the murine chromosome 13 region containing the beige locus was homologous to human chromosome 1, we have mapped the CHS locus to a 5-cM interval in chromosome segment 1q42.1-q42.2. The highest LOD score was obtained with the marker D1S235 (Zmax = 5.38; theta = 0). Haplo-type analysis enabled us to establish D1S2680 and D1S163, respectively, as the telomeric and the centromeric flanking markers. Multipoint linkage analysis confirms the localization of the CHS locus in this interval. Three YAC clones were found to cover the entire region in a conting established by YAC end-sequence characterization and sequence-tagged site mapping. The YAC contig contains all genetic markers that are nonrecombinant for the disease in the nine CHS families studied. This mapping confirms the previous hypothesis that the same gene defect causes CHS in human and beige pheno-type in mice and provides a genetic framework for the identification of candidate genes.

  3. -Deformed nonlinear maps

    Indian Academy of Sciences (India)

    Ramaswamy Jaganathan; Sudeshna Sinha

    2005-03-01

    Motivated by studies on -deformed physical systems related to quantum group structures, and by the elements of Tsallis statistical mechanics, the concept of -deformed nonlinear maps is introduced. As a specific example, a -deformation procedure is applied to the logistic map. Compared to the canonical logistic map, the resulting family of -logistic maps is shown to have a wider spectrum of interesting behaviours, including the co-existence of attractors – a phenomenon rare in one-dimensional maps.

  4. A 1.7-Mb YAC contig around the human BDNF gene (11p13): integration of the physical, genetic, and cytogenetic maps in relation to WAGR syndrome

    Energy Technology Data Exchange (ETDEWEB)

    Rosier, M.F.; Martin, A.; Houlgatte, R. [Genetique Moleculaire et Biologie du Development, Villejuif (France)] [and others

    1994-11-01

    WAGR (Wilms tumor, aniridia, genito-urinary abnormalities, mental retardation) syndrome in humans is associated with deletions of the 11p13 region. The brain-derived neurotrophic factor (BDNF) gene maps to this region, and its deletion seems to contribute to the severity of the patient`s mental retardation. Yeast artificial chromosomes (YACs) carrying the BDNF gene have been isolated and characterized. Localization of two known exons of this gene leads to a minimal estimation of its size of about 40 kb. Chimerism of the BDNF YACs has been investigated by fluorescence in situ hybridization and chromosome assignment on somatic cell hybrids. Using the BDNF gene, YAC end sequence tagged sites (STS), and Genethon microsatellite markers, the authors constructed a 1.7-Mb contig and refined the cytogenetic map at 11p13. The resulting integrated physical, genetic, and cytogenetic map constitutes a resource for the characterization of genes that may be involved in the WAGR syndrome. 42 refs., 2 figs., 3 tabs.

  5. Physical and genetic mapping of amplified fragment length polymorphisms and the leaf rust resistance Lr3 gene on chromosome 6BL of wheat.

    Science.gov (United States)

    Diéguez, M J; Altieri, E; Ingala, L R; Perera, E; Sacco, F; Naranjo, T

    2006-01-01

    The Argentinian wheat cultivar Sinvalocho MA carries the Lr3 gene for leaf rust resistance on distal chromosome 6BL. In this cultivar, 33 spontaneous susceptible lines were isolated and cytogenetically characterized by C-banding. The analysis revealed deletions on chromosome 6BL in most lines. One line was nulli-6B, two lines were ditelo 6BS, two, three, and ten lines had long terminal deletions of 40, 30, and 20%, respectively, three lines showed very small terminal deletions, and one line had an intercalary deletion of 11%. Physical mapping of 55 amplified fragment length polymorphism (AFLP) markers detected differences between deletions and led to the division of 6BL into seven bins delimited by deletion breakpoints. The most distal bin, with a length smaller than 5% of 6BL, contained 22 AFLP markers and the Lr3 gene. Polymorphism for nine AFLPs between Sinvalocho MA and the rust leaf susceptible cultivar Gamma 6 was used to construct a linkage map of Lr3. This gene is at a genetic distance of 0.9 cM from a group of seven closely linked AFLPs. The location of the gene in a high recombinogenic region indicated a physical distance of approximately 1 Mb to the markers. PMID:16215730

  6. Genetic and physical mapping of 2q35 in the region of NRAMP and IL8R genes: Identification of a polymorphic repeat in exon 2 of NRAMP

    Energy Technology Data Exchange (ETDEWEB)

    White, J.K.; Shaw, M.A.; Barton, C.H. [Addenbrooke`s Hospital, Cambridge (United Kingdom)] [and others

    1994-11-15

    Recent interest has focused on the region of conserved synteny between mouse chromosome 1 and human 2q33-q37, particularly over the region encoding the murine macrophage resistance gene Ity/Lsh/Bcg (candidate Nramp) and members of the Il8r interleukin-8 (IL8) receptor gene cluster. In this paper, identification of a restriction fragment length polymorphism in the Il8RB gene in 35 pedigrees previously typed for markers in the 2q33-37 interval provided evidence (lod scores > 3) for linkage between Il8RB and the 2q34-135 markers FN1, TNP1, VIL1, and DES. Physical mapping, using yeast artificial chromosomes isolated with VIL1, confirmed that IL8RA, IL8RB and the IL8RB pseudogene map within the NRAMP-VIL1 interval, with the physical distance (155 kb) from 5{prime} LSH to 3{prime} VIL1 representing {approx}3-fold that observed in the mouse. Partial sequencing of NRAMP confirmed the presence of the N-terminal proline/serine-rich putative SH3 binding domain in exon 2 of the human gene. Further analysis of Brazilian leprosy and visceral leishmaniasis pedigrees identified a rare second allele varying in a 9-nucleotide repeat motif of the exon 2 sequence but segregating independently of the disease phenotype. 38 refs., 4 figs., 3 tabs.

  7. Integration of genetic and physical maps of the Primula vulgaris S locus and localization by chromosome in situ hybridization

    OpenAIRE

    Li, Jinhong; Webster, Margaret; Wright, Jonathan; Cocker, Jonathan; Smith, Matthew; Badakshi, Farah; Heslop-Harrison, Pat; Gilmartin, Philip

    2015-01-01

    •Heteromorphic flower development in Primula is controlled by the S locus. The S locus genes, which control anther position, pistil length and pollen size in pin and thrum flowers, have not yet been characterized. We have integrated S-linked genes, marker sequences and mutant phenotypes to create a map of the P. vulgaris S locus region that will facilitate the identification of key S locus genes. We have generated, sequenced and annotated BAC sequences spanning the S locus, and identified its...

  8. Comparative Mapping of Soil Physical-Chemical and Structural Parameters at Field Scale to Identify Zones of Enhanced Leaching Risk

    DEFF Research Database (Denmark)

    Nørgaard, Trine; Møldrup, Per; Olsen, Preben;

    2013-01-01

    and organic carbon content and investigate whether it was possible to relate these to derived structural parameters such as bulk density and conservative tracer parameters and to actual particle and phosphorus leaching patterns obtained from laboratory leaching experiments. Sixty-five cylindrical soil columns...... characteristics including soil texture, bulk density, dissolved tracer, particle and phosphorus transport parameters identified the northern one-third of the field as a zone with higher leaching risk. This risk assessment based on parameter mapping from measurements on intact samples was in good agreement...

  9. Correlation of a subset of the pLC plasmids to the physical map of Escherichia coli K-12.

    OpenAIRE

    Nishimura, A.; Akiyama, K.; Kohara, Y.; Horiuchi, K

    1992-01-01

    We determined map positions of the Escherichia coli K-12 portions of a subset of the hybrid E. coli-ColE1 plasmids constructed by Clarke and Carbon. The probe DNA of pLC plasmids was labeled with digoxigenine-dUTP, hybridized to the 476 phage clones of the E. coli ordered clone bank miniset, which was adsorbed on a strip of nylon membrane filters, and detected by enzyme-linked immunoassay and a subsequent enzyme-catalyzed color reaction. The total number of Clarke-Carbon plasmids we analyzed ...

  10. High-resolution physical mapping and construction of a porcine contig spanning the intramuscular fat content QTL.

    Science.gov (United States)

    Sato, S; Hasebe, H; Sato, S; Asahi, Y; Hayashi, T; Kobayashi, E; Sugimoto, Y

    2006-04-01

    We previously mapped a locus for porcine intramuscular fat content (IMF) by linkage analysis to a 17.1-cM chromosome interval on Sus scrofa chromosome 7 (SSC7) flanked by microsatellite markers SW1083 and SW581. In this study, we identified 34 microsatellite markers and 14 STSs from the 17.1-cM IMF quantitative trait loci (QTL) region corresponding to HSA14q and aligned those loci using the INRA-University of Minnesota porcine radiation hybrid (IMpRH) panel. We then constructed a 5.2-Mb porcine bacterial artificial chromosome (BAC) contig of this region that was aligned using the RH panel. Finally, the IMF QTL was fine-mapped to 12.6 cM between SJ169 and MM70 at the 0.1% chromosome-wise significance level by genotyping the previously studied F2 resource family with 17 additional microsatellites. We also demonstrated that the SJ169-MM70 interval spans approximately 3.0 Mb and contains at least 12 genes: GALC, GPR65, KCNK10, SPATA7, PTPN21, FLJ11806, EML5, TTC8, CHES1, CAP2P1, CHORDC2P and C14orf143. PMID:16573525

  11. Connecting Three Pivotal Concepts in K-12 Science State Standards and Maps of Conceptual Growth to Research in Physics Education

    CERN Document Server

    Singh, Chandralekha

    2016-01-01

    This paper describes three conceptual areas in physics that are particularly important targets for educational interventions in K-12 science. These conceptual areas are force and motion, conservation of energy, and geometrical optics, which were prominent in the US national and four US state standards that we examined. The four US state standards that were analyzed to explore the extent to which the K-12 science standards differ in different states were selected to include states in different geographic regions and of different sizes. The three conceptual areas that were common to all the four state standards are conceptual building blocks for other science concepts covered in the K-12 curriculum. Since these three areas have been found to be ripe with deep student misconceptions that are resilient to conventional physics instruction, the nature of difficulties in these areas is described in some depth, along with pointers towards approaches that have met with some success in each conceptual area.

  12. Prevalence of physical activity and obesity in US counties, 2001–2011: a road map for action

    OpenAIRE

    Dwyer-Lindgren, Laura; Freedman, Greg; Engell, Rebecca E; Fleming, Thomas D; Lim, Stephen S; Murray, Christopher JL; Mokdad, Ali H

    2013-01-01

    Background Obesity and physical inactivity are associated with several chronic conditions, increased medical care costs, and premature death. Methods We used the Behavioral Risk Factor Surveillance System (BRFSS), a state-based random-digit telephone survey that covers the majority of United States counties, and the National Health and Nutrition Examination Survey (NHANES), a nationally representative sample of the US civilian noninstitutionalized population. About 3.7 million adults aged 20 ...

  13. Mapping and modeling the urban landscape in Bangkok, Thailand: Physical-spectral-spatial relations of population-environmental interactions

    Science.gov (United States)

    Shao, Yang

    This research focuses on the application of remote sensing, geographic information systems, statistical modeling, and spatial analysis to examine the dynamics of urban land cover, urban structure, and population-environment interactions in Bangkok, Thailand, with an emphasis on rural-to-urban migration from rural Nang Rong District, Northeast Thailand to the primate city of Bangkok. The dissertation consists of four main sections: (1) development of remote sensing image classification and change-detection methods for characterizing imperviousness for Bangkok, Thailand from 1993-2002; (2) development of 3-D urban mapping methods, using high spatial resolution IKONOS satellite images, to assess high-rises and other urban structures; (3) assessment of urban spatial structure from 2-D and 3-D perspectives; and (4) an analysis of the spatial clustering of migrants from Nang Rong District in Bangkok and the neighborhood environments of migrants' locations. Techniques are developed to improve the accuracy of the neural network classification approach for the analysis of remote sensing data, with an emphasis on the spectral unmixing problem. The 3-D building heights are derived using the shadow information on the high-resolution IKONOS image. The results from the 2-D and 3-D mapping are further examined to assess urban structure and urban feature identification. This research contributes to image processing of remotely-sensed images and urban studies. The rural-urban migration process and migrants' settlement patterns are examined using spatial statistics, GIS, and remote sensing perspectives. The results show that migrants' spatial clustering in urban space is associated with the source village and a number of socio-demographic variables. In addition, the migrants' neighborhood environments in urban setting are modeled using a set of geographic and socio-demographic variables, and the results are scale-dependent.

  14. Characterization and mapping of surface physical properties of Mars from CRISM multi-angular data: application to Gusev Crater and Meridiani Planum

    CERN Document Server

    Fernando, J; Pilorget, C; Pinet, P; Ceamanos, X; Douté, S; Daydou, Y; Costard, F

    2014-01-01

    The analysis of the surface texture from the particle (grain size, shape and internal structure) to its organization (surface roughness) provides information on the geological processes. CRISM multi-angular observations (varied emission angles) allow to characterize the surface scattering behavior which depends on the composition but also the material physical properties (e.g., grain size, shape, internal structure, the surface roughness). After an atmospheric correction by the Multi-angle Approach for Retrieval of the Surface Reflectance from CRISM Observations, the surface reflectances at different geometries are analyzed by inverting the Hapke photometric model depending on the single scattering albedo, the 2-term phase function, the macroscopic roughness and the 2-term opposition effects. Surface photometric maps are created to observe the spatial variations of surface scattering properties as a function of geological units at the CRISM spatial resolution (200m/pixel). An application at the Mars Explorati...

  15. Fructose-1,6-bisphosphatase: Genetic and physical mapping to human chromosome 9q22.3 and evaluation in non-insulin-dependent diabetes mellitus

    Energy Technology Data Exchange (ETDEWEB)

    Rothschild, C.B.; Akots, G.; Roh, B. [Wake Forest Univ., Winston-Salem, NC (United States)] [and others

    1995-09-01

    PCR primers specific to the human liver fructose-1,6-bisphosphatase (FBP) gene were designed and used to isolate a cosmid clone. Physical mapping of the FBP cosmid by FISH, and genetic mapping of an associated GA repeat polymorphism (PIC = 0.35), located the liver FBP gene to chromosome 9q22.3 with no recombination between FBP and the index markers D9S196 (Z{sub max} = 13.2), D9S280 (Z{sub max} = 11.7), D9S287 (Z{sub max} = 15.6), and D9S176 (Z{sub max} = 14.4). Amplification using FBP exon-specific primers with a YAC contig from this region of chromosome 9 further refined the placement of FBP genomic sequences to an approximately 1.7-cM region flanked by D9S280 and D9S287, near the gene for Fanconi anemia group C. Precise localization of the FBP gene enabled evaluation of FBP as a candidate gene for maturity-onset diabetes of the young (MODY) and non-insulin-dependent diabetes (NIDDM) in both Caucasian and African-American families, using the highly informative markers D9S287 and D9S176. Although FBP is a rate-limiting enzyme in gluconeogenesis, using both parametric and nonparametric analysis there was no evidence for linkage of FBP to diabetes in these families. 30 refs., 4 figs., 2 tabs.

  16. Physical mapping of 18S and 5S genes in pelagic species of the genera Caranx and Carangoides (Carangidae).

    Science.gov (United States)

    Jacobina, U P; Bertollo, L A C; Bello Cioffi, M; Molina, W F

    2014-11-14

    In Carangidae, Caranx is taxonomically controversial because of slight morphological differences among species, as well as because of its relationship with the genus Carangoides. Cytogenetic data has contributed to taxonomic and phylogenetic classification for some groups of fish. In this study, we examined the chromosomes of Caranx latus, Caranx lugubris, and Carangoides bartholomaei using classical methods, including conventional staining, C-banding, silver staining for nuclear organizer regions, base-specific fluorochrome, and 18S and 5S ribosomal sequence mapping using in situ hybridization. These 3 species showed chromosome numbers of 2n = 48, simple nuclear organizer regions (pair 1), and mainly centromeric heterochomatin. However, C. latus (NF = 50) and C. bartholomaei (NF = 50) showed a structurally conserved karyotype compared with C. lugubris (NF = 54), with a larger number of 2-armed chromosomes. The richness of GC-positive heterochromatic segments and sites in 5S rDNA in specific locations compared to the other 2 species reinforce the higher evolutionary dynamism in C. lugubris. Cytogenetic aspects shared between C. latus and C. bartholomaei confirm the remarkable phylogenetic proximity between these genera.

  17. Comparative physical mapping of the 18S-5.8S-26S rDNA in three sorghum species.

    Science.gov (United States)

    Sang, Y; Liang, G H

    2000-10-01

    The physical locations of the 18S-5.8S-26S rDNA sequences were examined in three sorghum species by fluorescence in situ hybridization (FISH) using biotin-labeled heterologous 18S-5.8S-26S rDNA probe (pTa71). Each 18S-5.8S-26S rDNA locus occurred at two sites on the chromosomes in Sorghum bicolor (2n = 20) and S. versicolor (2n = 10), but at four sites on the chromosomes of S. halepense (2n = 40) and the tetraploid S. versicolor (2n = 20). Positions of the rDNA loci varied from the interstitial to terminal position among the four accessions of the three sorghum species. The rDNA data are useful for investigation of chromosome evolution and phylogeny. This study excluded S. versicolor as the possible progenitor of S. bicolor.

  18. Genetic and physical mapping of candidate genes for resistance to Fusarium oxysporum f.sp. tracheiphilum race 3 in cowpea [Vigna unguiculata (L. Walp].

    Directory of Open Access Journals (Sweden)

    Marti Pottorff

    Full Text Available Fusarium oxysporum f.sp. tracheiphilum (Fot is a soil-borne fungal pathogen that causes vascular wilt disease in cowpea. Fot race 3 is one of the major pathogens affecting cowpea production in California. Identification of Fot race 3 resistance determinants will expedite delivery of improved cultivars by replacing time-consuming phenotypic screening with selection based on perfect markers, thereby generating successful cultivars in a shorter time period. Resistance to Fot race 3 was studied in the RIL population California Blackeye 27 (resistant x 24-125B-1 (susceptible. Biparental mapping identified a Fot race 3 resistance locus, Fot3-1, which spanned 3.56 cM on linkage group one of the CB27 x 24-125B-1 genetic map. A marker-trait association narrowed the resistance locus to a 1.2 cM region and identified SNP marker 1_1107 as co-segregating with Fot3-1 resistance. Macro and microsynteny was observed for the Fot3-1 locus region in Glycine max where six disease resistance genes were observed in the two syntenic regions of soybean chromosomes 9 and 15. Fot3-1 was identified on the cowpea physical map on BAC clone CH093L18, spanning approximately 208,868 bp on BAC contig250. The Fot3-1 locus was narrowed to 0.5 cM distance on the cowpea genetic map linkage group 6, flanked by SNP markers 1_0860 and 1_1107. BAC clone CH093L18 was sequenced and four cowpea sequences with similarity to leucine-rich repeat serine/threonine protein kinases were identified and are cowpea candidate genes for the Fot3-1 locus. This study has shown how readily candidate genes can be identified for simply inherited agronomic traits when appropriate genetic stocks and integrated genomic resources are available. High co-linearity between cowpea and soybean genomes illustrated that utilizing synteny can transfer knowledge from a reference legume to legumes with less complete genomic resources. Identification of Fot race 3 resistance genes will enable transfer into high yielding

  19. Mapping out Map Libraries

    Directory of Open Access Journals (Sweden)

    Ferjan Ormeling

    2008-09-01

    Full Text Available Discussing the requirements for map data quality, map users and their library/archives environment, the paper focuses on the metadata the user would need for a correct and efficient interpretation of the map data. For such a correct interpretation, knowledge of the rules and guidelines according to which the topographers/cartographers work (such as the kind of data categories to be collected, and the degree to which these rules and guidelines were indeed followed are essential. This is not only valid for the old maps stored in our libraries and archives, but perhaps even more so for the new digital files as the format in which we now have to access our geospatial data. As this would be too much to ask from map librarians/curators, some sort of web 2.0 environment is sought where comments about data quality, completeness and up-to-dateness from knowledgeable map users regarding the specific maps or map series studied can be collected and tagged to scanned versions of these maps on the web. In order not to be subject to the same disadvantages as Wikipedia, where the ‘communis opinio’ rather than scholarship, seems to be decisive, some checking by map curators of this tagged map use information would still be needed. Cooperation between map curators and the International Cartographic Association ( ICA map and spatial data use commission to this end is suggested.

  20. Characterization and physical mapping of 18S and 5S ribosomal genes in Indian major carps (Pisces, Cyprinidae).

    Science.gov (United States)

    Ravindra Kumar; Kushwaha, Basdeo; Nagpure, Naresh S

    2013-06-01

    Characterization of the major (18S) and minor (5S) ribosomal RNA genes were carried out in three commercially important Indian major carp (IMC) species, viz. Catla catla, Labeo rohita and Cirrhinus mrigala along with their physical localizations using dual colour fluorescence in situ hybridization. The diploid chromosome number in the above carps was confirmed to be 50 with inter-species karyo-morphological variations. The 18S rDNA signals were observed on 3 pair of chromosomes in C. catla and L. rohita, and two pairs in C. mrigala. The 5S rDNA signal was found on single pair of chromosome in all the species with variation in their position on chromosomes. The sequencing of 18S rDNA generated 1804, 1805 and 1805 bp long fragments, respectively, in C. catla, L. rohita and C. mrigala with more than 98% sequence identity among them. Similarly, sequencing of 5S rDNA generated 191 bp long fragments in the three species with 100% identity in coding region and 23.2% overall variability in non-transcribed spacer region. Thus, these molecular markers could be used as species-specific markers for taxonomic identification and might help in understanding the genetic diversity, genome organization and karyotype evolution of these species.

  1. HST/STIS observations of the RW Aurigae bipolar jet: mapping the physical parameters close to the source

    CERN Document Server

    Melnikov, Stanislav; Bacciotti, Francesca; Woitas, Jens; Ray, Thomas P

    2009-01-01

    We present the results of new spectral diagnostic investigations applied to high-resolution long-slit spectra of the RW Aur bipolar jet obtained with HST/STIS. The spectra include the forbidden doublets [O I] 6300,6363 \\AA, [S II] 6716,6731 \\AA, and [N II] 6548, 6583 \\AA that we utilized to determine electron density, electron temperature, hydrogen ionisation fraction, total hydrogen density, radial velocity and the mass outflow rate. We were able to extract the parameters as far as 3".9 in the red- and 2".1 in the blueshifted beam. The RW Aur jet appears to be the second densest outflow from a T Tauri star studied so far, but its other properties are quite similar to those found in other jets from young stars. The overall trend of the physical parameters along the first few arcseconds of the RW Aur jet is similar to that of HH 30 and DG Tau and this can reflect analogies in the mechanisms operating in that region, suggesting the same engine is accelerating the jets in the T Tauri stars with outflows. Our stu...

  2. Physical Connectivity Mapping by Circular Permutation of Human Telomerase RNA Reveals New Regions Critical for Activity and Processivity.

    Science.gov (United States)

    Mefford, Melissa A; Zappulla, David C

    2015-01-01

    Telomerase is a specialized ribonucleoprotein complex that extends the 3' ends of chromosomes to counteract telomere shortening. However, increased telomerase activity is associated with ∼90% of human cancers. The telomerase enzyme minimally requires an RNA (hTR) and a specialized reverse transcriptase protein (TERT) for activity in vitro. Understanding the structure-function relationships within hTR has important implications for human disease. For the first time, we have tested the physical-connectivity requirements in the 451-nucleotide hTR RNA using circular permutations, which reposition the 5' and 3' ends. Our extensive in vitro analysis identified three classes of hTR circular permutants with altered function. First, circularly permuting 3' of the template causes specific defects in repeat-addition processivity, revealing that the template recognition element found in ciliates is conserved in human telomerase RNA. Second, seven circular permutations residing within the catalytically important core and CR4/5 domains completely abolish telomerase activity, unveiling mechanistically critical portions of these domains. Third, several circular permutations between the core and CR4/5 significantly increase telomerase activity. Our extensive circular permutation results provide insights into the architecture and coordination of human telomerase RNA and highlight where the RNA could be targeted for the development of antiaging and anticancer therapeutics. PMID:26503788

  3. Karyotype analysis and physical mapping of 45S rDNA in eight species of Sophora,Robinia,and Amorpha

    Institute of Scientific and Technical Information of China (English)

    LIU Bo; CHEN Chengbin; LI Xiulan; QI Liwang; HAN Suying

    2006-01-01

    The karyotype analysis and physical locations of 45S rDNA were carried out by means of fluorescence in situ hybridization in three species,and two forms of Sophora,two species of Robina,and one species of Amorpha.S.japonica L.,S.japonica L.f.oligophylla Franch.,S.japonica L.f.pendula Loud.,and S.xanthantha C.Y.Ma.are all tetraploids with 2n=28.There were four 45S rDNA sites in pericentromeric regions of two Pairs of chromosomes in each of them.S.rubriflora Tsoong.is a triploid with 2n=21,and three sites were located in each satellite of group 5 chromosomes.In R.pseudoacacia L.(2n=2x=22),we examined four intensive signals in telomeric regions of two pairs of satellite chromosomes.In R.hispida L.(2n=2x=30),there were four other signals in centromeric regions besides those like in R.pseudoacacia.Amorpha fruticosa L.has most chromosomes(2n=40)among the eight materials,however,there were only six 45S rDNA loci and they laid in centromeric regions,and satellites of three pairs of chromosomes.45S rDNA is a valuable chromosomal landmark in karyotype analysis.The distribution and genomic organization Of rDNA in the three genera were also discussed.

  4. Using Playground Maps for Movement

    Science.gov (United States)

    Colvin, A. Vonnie

    2016-01-01

    Many schools now decorate their outside hard surface areas with maps. These maps provide color and excitement to a playground and are a terrific teaching tool for geography. But these maps can easily be integrated into physical education as well to promote both physical activity as well as knowledge of geography. The purpose of this article is to…

  5. Genetic and physical mapping of the Treacher Collins syndrome locus with respect to loci in the chromosome 5q3 region

    Energy Technology Data Exchange (ETDEWEB)

    Jabs, E.W.; Li, Xiang; Coss, C.; Taylor, E. (Johns Hopkins School of Medicine, Baltimore, MD (United States)); Lovett, M. (Univ. of Texas Southwestern Medical Center, San Antonio, TX (United States)); Yamaoka, L.H.; Speer, M.C. (Duke Univ. Medical Center, Durham, NC (United States)); Cadle, R.; Hall, B. (Univ. of Kentucky, Lexington, KY (United States)); Brown, K. (Albert Einstein College of Medicine and Montefiore Medical Center, Bronx, NY (United States)) (and others)

    1993-10-01

    Treacher Collins syndrome is an autosomal dominant, craniofacial developmental disorder, and its locus (TCOF1) has been mapped to chromosome 5q3. To refine the location of the gene within this region, linkage analysis was performed among the TCOF1 locus and 12 loci (IL9, FGFA, GRL, D5S207, D5S210, D5S376, CSF1R, SPARC, D5S119, D5S209, D5S527, FGFR4) in 13 Treacher Collins syndrome families. The highest maximum lod score was obtained between loci TCOF1 and D5S210 (Z = 10.52; [theta] = 0.02 [+-] 0.07). The best order, IL9-GRL-D5S207/D5S210-CSF1R-SPARC-D5S119, and genetic distances among these loci were determined in the 40 CEPH families by multipoint linkage analysis. YAC clones were used to establish the order of loci, centromere-5[prime]GRL3[prime]-D5S207-D5S210-D5S376-CSF1R-SPARC-D5S119-telomere. By combining known physical mapping data with ours, the order of chromosome 5q3 markers is centomere-IL9-FGFA-5[prime]GRL3[prime]-D5s207-D5S210-D5S376-CSF1R-SPARC-D5S119-D5S209-FGFR4-telomere. Based on this order, haplotype analysis suggests that the TCOF1 locus resides distal CSF1R and proximal to SPARC within a region less than 1 Mb in size. 29 refs., 2 figs., 2 tabs.

  6. Genetics of avirulence genes in Blumeria graminis f.sp. hordei and physical mapping of AVR(a22) and AVR(a12).

    Science.gov (United States)

    Skamnioti, Pari; Pedersen, Carsten; Al-Chaarani, Ghias R; Holefors, Anna; Thordal-Christensen, Hans; Brown, James K M; Ridout, Christopher J

    2008-03-01

    Powdery mildew fungi are parasites that cause disease on a wide range of important crops. Plant resistance (R) genes, which induce host defences against powdery mildews, encode proteins that recognise avirulence (AVR) molecules from the parasite in a gene-for-gene manner. To gain insight into how virulence evolves in Blumeria graminis f.sp. hordei, associations between segregating AVR genes were established. As a prerequisite to the isolation of AVR genes, two loci were selected for further analysis. AVR(a22) is located in a tightly linked cluster comprising AVR(a10) and AVR(k1) as well as up to five other AVR genes. The ratio between physical and genetic distance in the cluster ranged between 0.7 and 35 kB/cM. The AVR(a22) locus was delimited by the previously isolated gene AVR(a10) and two cleaved amplified polymorphic sequence (CAPS) markers, 19H12R and 74E9L. By contrast, AVR(a12) was not linked to other AVR genes in two crosses. Bulk segregant analysis of over 100,000 AFLP fragments yielded two markers, ETAMTG-285 and PAAMACT-473, mapping 10 and 2cM from AVR(a12), respectively, thus delimiting AVR(a12) on one side. All markers obtained for AVR(a12) mapped proximal to it, indicating that the gene is located at the end of a chromosome. Three more AVR(a10) paralogues were identified at the locus interspersed among genes for metabolic enzymes and abundant repetitive elements, especially those homologous to the CgT1 class of retrotransposons. The flanking and close markers obtained will facilitate the isolation of AVR(a22) and AVR(a12) and provide useful tools for studies of the evolution of powdery mildew fungi in agriculture and nature. PMID:18036855

  7. Physical mapping of the split hand/split foot (SHSF) locus on chromosome 7 reveals a relationship between SHSF and the syndromic ectrodactylies

    Energy Technology Data Exchange (ETDEWEB)

    Poorkaj, P.; Nunes, M.E.; Geshuri, D. [Univ. of Washington, Seattle, WA (United States)] [and others

    1994-09-01

    Split hand/split foot (also knows as ectrodactyly) is a human developmental malformation characterized by missing digits and claw-like extremities. An autosomal dominant form of this disorder has been mapped to 7q21.3-q22.1 on the basis of SHSF-associated chromosomal rearrangements: this locus has been designated SHFD1. We have constructed a physical map of the SHFD1 region that consists of contiguous yeast artificial chromosome clones and spans approximately 8 Mb. Somatic cell hybrid and fluorescent in situ hybridization analyses were used to define SHSF-associated chromosomal breakpoints in fourteen patients. A critical interval of about 1 Mb was established for SHFD1 by analysis of six patients with deletions. Translocation and inversion breakpoints in seven other patients were found to localize within a 500-700 kb interval within the critical region. Several candidate genes including DLX5 and DLX6 (members of the Drosophilia Distal-less homeobox-containing gene family) localize to this region. At least four of these genes are expressed in the developing mouse limb bud. Of particular interest is the observation that 8 of the 14 patients studied have syndromic ectrodactyly, which is characterized by the association of SHSF with a variety of other anomalies including cleft lip/palate, ectodermal dysplasia, and renal anomalies. Thus, these data implicate a single gene or cluster of genes at the SHFD1 locus in a wide range of developmental processes and serve to establish a molecular genetic relationship between simple SHSF and a broad group of human birth defects.

  8. HST/STIS observations of the RW Aurigae bipolar jet: mapping the physical parameters close to the source

    Science.gov (United States)

    Melnikov, S. Yu; Eislöffel, J.; Bacciotti, F.; Woitas, J.; Ray, T. P.

    2009-11-01

    Context: We present the results of new spectral diagnostic investigations applied to high-resolution long-slit spectra obtained with the Hubble Space Telescope Imaging Spectrograph (HST/STIS) of the jet from the T Tauri star RW Aur. Aims: Our primary goal is to determine basic physical parameters (electron density ne and electron temperature Te, hydrogen ionisation fraction xe, total hydrogen density nH, radial velocity vr and the mass outflow rate dot Mj) along both the red- and blueshifted lobes of the RW Aur jet. Methods: The input dataset consists of seven long-slit spectra, of 0.1 arcsec spatial resolution, taken with the STIS slit parallel to the jet, and stepped across it. We use the Bacciotti & Eislöffel (1999, A&A, 342, 717) method to analyse the forbidden doublets [O I]λλ6300,6363, [S II]λλ 6716,6731, and [N II]λλ 6548,6583 Å to extract n_e, T_e, x_e, and n_H. Results: We were able to extract the parameters as far as 3.9 arcsec in the red- and 2.1 arcsec in the blueshifted beam. The electron density at the base of both lobes is close to the critical density for [S II] emission but then it decreases gradually with distance from the source. The range of electron temperatures derived for this jet (Te = 10^4-2×104 K) is similar to those generally found in other outflows from young stars. The ionisation fraction xe varies between 0.04 and 0.4, increasing within the first few arcseconds and then decreasing in both lobes. The total hydrogen density, derived as nH = ne / x_e, is on average 3.2×104 cm-3 and shows a gradual decrease along the beam. Variations of the above quantities along the jet lobes appear to be correlated with the position of knots. Combining the derived parameters with vr measured from the HST spectra and other characteristics available for this jet, we estimate dot Mj following two different procedures. The mass-outflow rate dot Mj is moderate and similar in the two lobes, despite the fact that the well-known asymmetry in the radial

  9. High-resolution meiotic and physical mapping of the Best`s vitelliform macular dystrophy (VMD2) locus to pericentromeric chromosome 11

    Energy Technology Data Exchange (ETDEWEB)

    Weber, B.H.F.; Vogt, G. [Institut fuer Humangenetik, Wuerzburg (Germany); Walker, D. [UBC, Vancouver (Canada)] [and others

    1994-09-01

    Vitelliform macular dystrophy, also known as Best`s disease, is a juvenile-onset macular degeneration with autosomal dominant inheritance. It is characterized by well-demarcated accumulation of lipofuscin-like material within and beneath the retinal pigment epithelium (RPE) and classically results in an egg yolk-like appearance of the macula. Typically, carriers of the disease gene show a specific electrophysiological sign which can be detected by electrooculography (EOG). The EOG measures a standing potential between the cornea and the retina which is primarily generated by the RPE. The histopathological findings as well as the EOG abnormalities suggest that Best`s disease is a generalized disorder of the RPE. The basic biochemical defect is still unknown. As a first step in the positional cloning of the defective gene, the Best`s disease locus was mapped to chromosome 11 between markers at D11S871 and INT2. Subsequently, his region was refined to a 3.7 cM interval flanked by loci D11S903 and PYGM. To further narrow the D11S903-PYGM interval and to obtain an estimate of the physical size of the minimal candidate region, we used a combination of high-resolution PCR hybrid mapping and analysis of recombinant Best`s disease chromosomes. We identified six markers from within the D11S903-PYGM interval that show no recombination with the defective gene in three multigeneration Best`s disease pedigrees. Our hybrid panel localizes these markers on either side of the centromere on chromosome 11. The closest markers flanking the disease gene are at D11S986 in band p12-11.22 and at D11S480 in band q13.2-13.3. Our study demonstrates that the physical size of the Best`s disease region is exceedingly larger than was previously estimated from the genetic data due to the proximity of the defective gene to the centromere of chromosome 11.

  10. Invariants for Parallel Mapping

    Institute of Scientific and Technical Information of China (English)

    YIN Yajun; WU Jiye; FAN Qinshan; HUANG Kezhi

    2009-01-01

    This paper analyzes the geometric quantities that remain unchanged during parallel mapping (i.e., mapping from a reference curved surface to a parallel surface with identical normal direction). The second gradient operator, the second class of integral theorems, the Gauss-curvature-based integral theorems, and the core property of parallel mapping are used to derive a series of parallel mapping invadants or geometri-cally conserved quantities. These include not only local mapping invadants but also global mapping invari-ants found to exist both in a curved surface and along curves on the curved surface. The parallel mapping invadants are used to identify important transformations between the reference surface and parallel surfaces. These mapping invadants and transformations have potential applications in geometry, physics, biome-chanics, and mechanics in which various dynamic processes occur along or between parallel surfaces.

  11. Physical mapping of black spot disease resistance/susceptibility-related genome regions in Japanese pear (Pyrus pyrifolia) by BAC-FISH.

    Science.gov (United States)

    Yamamoto, Masashi; Terakami, Shingo; Takada, Norio; Yamamoto, Toshiya

    2016-06-01

    Black spot disease, caused by Alternaria alternata Japanese pear pathotype, is one of the most harmful diseases in Japanese pear cultivation. In the present study, the locations of black spot disease resistance/susceptibility-related genome regions were studied by fluorescence in situ hybridization using BAC clone (BAC-FISH) on Japanese pear (Pyrus pyrifolia (Burm. f.) Nakai) chromosomes. Root tips of self-pollinated seedlings of 'Osa Gold' were used as materials. Chromosome samples were prepared by the enzymatic maceration and air-drying method. The BAC clone adjacent to the black spot disease-related gene was labeled as a probe for FISH analysis. Black spot disease-related genome regions were detected in telomeric positions of two medium size chromosomes. These two sites and six telomeric 18S-5.8S-25S rDNA sites were located on different chromosomes as determined from the results of multi-color FISH. The effectiveness of the physical mapping of useful genes on pear chromosomes achieved by the BAC-FISH method was unequivocally demonstrated. PMID:27436955

  12. Physical mapping and cloning of a translocation in sugar beet (Beta vulgaris L) carrying a gene for nematode (Heterodera schachtii) resistance from B. procumbens.

    Science.gov (United States)

    Kleine, M; Cai, D; Elbl, C; Herrmann, R G; Jung, C

    1995-03-01

    Two diploid (2n=18) sugar beet (Beta vulgaris L.) lines which carry monogenic traits for nematode (Heterodera schachtii Schm.) resistance located on translocations from the wild beet species Beta procumbens were investigated. Short interspersed repetitive DNA elements exclusively hybridizing with wild beet DNA were found to be dispersed around the translocations. The banding pattern as revealed by genomic Southern hybridization was highly conserved among translocation lines of different origins indicating that the translocations are not affected by recombination events with sugar beet chromosomes. Physical mapping revealed that the entire translocation is represented by a single Sal I fragment 300 kb in size. A representative YAC (yeast artifical chromosome) library consisting of approximately 13,000 recombinant clones (2.2 genome equivalents) with insert sizes ranging between 50 and 450 kb and an average of 130kb has been constructed from the resistant line A906001. Three recombinant YACs were isolated from this library using the wild beet-specific repetitive elements as probes for screening. Colinearity between YAC inserts and donor DNA was confirmed by DNA fingerprinting utilizing these repetitive probes. The YACs were arranged into two contigs with a total size of 215 kb; these represent a minimum of 72% of the translocation.

  13. An Ammonia Spectral Map of the L1495-B218 Filaments in the Taurus Molecular Cloud : I. Physical Properties of Filaments and Dense cores

    CERN Document Server

    Seo, Young Min; Goldsmith, Paul; Ward-Thompson, Derek; Kirk, Jason M; Schmalzl, Markus; Lee, Jeong-Eun; Friesen, Rachel; Langston, Glen; Masters, Joe; Garwood, Robert W

    2015-01-01

    We present deep NH$_3$ observations of the L1495-B218 filaments in the Taurus molecular cloud covering over a 3 degree angular range using the K-band focal plane array on the 100m Green Bank Telescope. The L1495-B218 filaments form an interconnected, nearby, large complex extending over 8 pc. We observed NH$_3$ (1,1) and (2,2) with a spectral resolution of 0.038 km/s and a spatial resolution of 31$"$. Most of the ammonia peaks coincide with intensity peaks in dust continuum maps at 350 $\\mu$m and 500 $\\mu$m. We deduced physical properties by fitting a model to the observed spectra. We find gas kinetic temperatures of 8 $-$ 15 K, velocity dispersions of 0.05 $-$ 0.25 km/s, and NH$_3$ column densities of 5$\\times$10$^{12}$ $-$ 1$\\times$10$^{14}$ cm$^{-2}$. The CSAR algorithm, which is a hybrid of seeded-watershed and binary dendrogram algorithms, identifies a total of 55 NH$_3$ structures including 39 leaves and 16 branches. The masses of the NH$_3$ sources range from 0.05 M$_\\odot$ to 9.5 M$_\\odot$. The masses...

  14. 新课程理念下一种可能的评价方法--物理概念图%A Possible Evaluation Method under the Concept of the New Curriculum:Physical Concept Map

    Institute of Scientific and Technical Information of China (English)

    韩娟

    2013-01-01

    The paper introduces the basic structure and its theo-retical source of the physical concept map. The paper then re-searches the application of the physical concept maps form the aspects of physical evaluation methods and structure, and points out some issues which need to be discussed in the application.%本文介绍了物理概念图的基本结构及其理论来源,着重从评价方法及结构方面探讨了物理概念图的应用,并指出了其在应用中有待探讨的问题。

  15. Physical mapping studies at D15S10: Implications for candidate gene identification in the Angelman syndrome/Prader-Willi syndrome chromosome region of 15q11-q13

    Energy Technology Data Exchange (ETDEWEB)

    Woodage, T.; Lindeman, R.; Deng, Z.M.; Fimmel, A.; Trent, R.J. (Royal Prince Alfred Hospital, New South Wales (Australia)); Smith, A. (Children' s Hospital, New South Wales (Australia))

    1994-01-01

    The Angelman syndrome (AS) and Prader-Willi syndrome (PWS) loci have been mapped to chromosome 15q11-q13. Chromosomal deletions of differing parental origin in the two syndromes have been interpreted as being due to genetic imprinting. Molecular analysis of patients with varying deletions has localized the AS locus to the interval between D15S113 and GABRB3 and the PWS locus between D15S13 and D15S113. In the present study, DNA cloning and physical mapping techniques have been used to characterize the AS/PWS chromosome region in the vicinity of D15S10, a locus that is telomeric to D15S113 and centromeric to GABRB3. A CpG island near TD3-21 at D15S10 has been cloned, allowing the identification of a widely expressed 4.5-kb transcript and providing a novel DNA marker, OP3, at this locus. OP3 and TD3-21 have been used to construct a long-range physical map extending over approximately 2800 kb. Clusters of rare-cutting restriction sites on this map locate four other CpG islands. Since these CpG islands lie within the minimum deletion intervals for AS and PWS, they mark the possible locations of candidate genes for the two syndromes. 13 refs., 2 figs.

  16. Planetary maps

    Science.gov (United States)

    ,

    1992-01-01

    An important goal of the USGS planetary mapping program is to systematically map the geology of the Moon, Mars, Venus, and Mercury, and the satellites of the outer planets. These geologic maps are published in the USGS Miscellaneous Investigations (I) Series. Planetary maps on sale at the USGS include shaded-relief maps, topographic maps, geologic maps, and controlled photomosaics. Controlled photomosaics are assembled from two or more photographs or images using a network of points of known latitude and longitude. The images used for most of these planetary maps are electronic images, obtained from orbiting television cameras, various optical-mechanical systems. Photographic film was only used to map Earth's Moon.

  17. Re-annotation of the physical map of Glycine max for polyploid-like regions by BAC end sequence driven whole genome shotgun read assembly

    Directory of Open Access Journals (Sweden)

    Shultz Jeffry

    2008-07-01

    Full Text Available Abstract Background Many of the world's most important food crops have either polyploid genomes or homeologous regions derived from segmental shuffling following polyploid formation. The soybean (Glycine max genome has been shown to be composed of approximately four thousand short interspersed homeologous regions with 1, 2 or 4 copies per haploid genome by RFLP analysis, microsatellite anchors to BACs and by contigs formed from BAC fingerprints. Despite these similar regions,, the genome has been sequenced by whole genome shotgun sequence (WGS. Here the aim was to use BAC end sequences (BES derived from three minimum tile paths (MTP to examine the extent and homogeneity of polyploid-like regions within contigs and the extent of correlation between the polyploid-like regions inferred from fingerprinting and the polyploid-like sequences inferred from WGS matches. Results Results show that when sequence divergence was 1–10%, the copy number of homeologous regions could be identified from sequence variation in WGS reads overlapping BES. Homeolog sequence variants (HSVs were single nucleotide polymorphisms (SNPs; 89% and single nucleotide indels (SNIs 10%. Larger indels were rare but present (1%. Simulations that had predicted fingerprints of homeologous regions could be separated when divergence exceeded 2% were shown to be false. We show that a 5–10% sequence divergence is necessary to separate homeologs by fingerprinting. BES compared to WGS traces showed polyploid-like regions with less than 1% sequence divergence exist at 2.3% of the locations assayed. Conclusion The use of HSVs like SNPs and SNIs to characterize BACs wil improve contig building methods. The implications for bioinformatic and functional annotation of polyploid and paleopolyploid genomes show that a combined approach of BAC fingerprint based physical maps, WGS sequence and HSV-based partitioning of BAC clones from homeologous regions to separate contigs will allow reliable de

  18. Physical mapping of the herpes simplex virus type 2 nuc- lesion affecting alkaline exonuclease activity by using herpes simplex virus type 1 deletion clones.

    Science.gov (United States)

    Wathen, M W; Hay, J

    1984-07-01

    The nuc- lesion affecting alkaline exonuclease activity in the herpes simplex virus type 2 (HSV-2) mutant ts1348 had previously been mapped to the EcoRI-D restriction enzyme fragment of HSV-1. Eight clones with deletions representing most of HSV-1 EcoRI fragment D were selected with lambda gtWES hybrids. These clones were tested for their ability to rescue the alkaline exonuclease activity of HSV-2 nuc- ts1348 virus. The sequences colinear with the HSV-2 nuc- lesion were found to map between 0.169 and 0.174 map units on the HSV-1 Patton genome, representing an 0.8-kilobase-pair region that is 12.9 to 13.7 kilobase pairs from the left end of HSV-1 EcoRI fragment D.

  19. Construction of a bacterial artificial chromosome (BAC) library of Lycopersicon esculentum cv. Stevens and its application to physically map the Sw-5 locus

    NARCIS (Netherlands)

    Spassova, MI; Prins, M; Stevens, MR; Hille, J; Goldbach, RW; Spassova, Mariana I.; Stevens, Mikel R.; Goldbach, Rob W.

    1999-01-01

    The Sw-5 gene is a dominantly inherited resistance gene in tomato and functional against a number of tospovirus species. The gene has been mapped on chromosome 9, tightly linked to RFLP markers CT220 and SCAR421. To analyse the Sw-5 locus, a BAC genomic library was constructed of tomato cv. Stevens,

  20. Physical and linkage mapping of the human and murine genes for the [alpha]1 chain of type IX collagen (COL9A1)

    Energy Technology Data Exchange (ETDEWEB)

    Warman, M.L. (Harvard Medical School, Boston, MA (United States) Children' s Hospital/Harvard Medical School, Boston, MA (United States)); Tiller, G.E.; Polumbo, P.A. (Vanderbilt Univ. Medical Center, Nashville, TN (United States)); Seldin, M.F.; Rochelle, J.M. (Duke Univ. Medical Center, Durham, NC (United States)); Knoll, J.H.M.; Cheng, Sou De (Children' s Hospital/Harvard Medical School, Boston, MA (United States)); Olsen, B.R. (Harvard Medical School, Boston, MA (United States))

    1993-09-01

    The IX collagen, a member of the FACIT family of extracellular matrix proteins, is a heterotrimer composed of three genetically distinct [alpha] chains. The cDNAs for the human and mouse [alpha]1(IX) chains have been cloned. In this paper the authors confirm the mapping of the human COL9A1 gene to chromosome 6q12-q13 by fluorescence in situ hybridization utilizing two genomic clones which also contain short tandem repeat polymorphisms. They also report the characterization of these repeats and their incorporation into the chromosome 6 linkage map. The COL9A1 locus shows no recombination with the marker D6Z1 (Z = 27.61 at [theta] = 0) and identifies the most likely locus order of KRAS1P-[D6Z1-COL9A1]-D6S30. In addition, using an interspecific backcross panel, they have mapped murine Col9a1 to mouse chromosome 1. Together with other comparative mapping results, these data suggest that the pericentric region of human chromosome 6 is homologous to the most proximal segment of mouse chromosome 1. These data may facilitate linkage studies with COL9A1 (or col9a1) as a candidate gene for hereditary chondrodysplasias and osteoarthritis. 35 refs., 2 figs., 2 tabs.

  1. Integration of the draft sequence and physical map as a framework for genomic research in soybean (Glycine max (L.) Merr.) and wild soybean (Glycine soja Sieb. and Zucc.)

    Science.gov (United States)

    Soybean is a model for the legume research community due to its importance as a crop, a well populated genetic map, and the availability of a genome sequence. Even though a whole genome shotgun sequence and Bacterial Artificial Chromosome (BAC) libraries are available, a high-resolution chromosome-b...

  2. A comparative study of map use

    DEFF Research Database (Denmark)

    Bouvin, Niels Olof; Brodersen, Ann Christina; Bødker, Susanne;

    2006-01-01

    We present a study comparing the handling of three kinds of maps, each on a physical device: a paper map, a tablet-PC based map, and a cellular phone based one. Six groups of users were asked to locate eight landmarks, looking out a window, and using a particular map. We have begun analyzing video...

  3. Composite Genus One Belyi Maps

    CERN Document Server

    Vidunas, Raimundas

    2016-01-01

    Motivated by a demand for explicit genus 1 Belyi maps from physics, we give an efficient method of explicitly computing genus one Belyi maps by (1) composing covering maps from elliptic curves to the Riemann surface with the simpler, univariate, genus zero Belyi maps as well as by (2) composing further with isogenies of the elliptic curve. This gives many new explicit dessins on the doubly periodic plane, including several which have been realized in the physics literature as so-called brane-tilings in the context of quiver gauge theories.

  4. Stimulation of Ideas through Compound-Based Bibliometrics: Counting and Mapping Chemical Compounds for Analyzing Research Topics in Chemistry, Physics, and Materials Science

    OpenAIRE

    Barth, Andreas; Marx, Werner

    2012-01-01

    Counting compounds (rather than papers or citations) offers a new perspective for quantitative analyses of research activities. First of all, we can precisely define (compound-related) research topics and access the corresponding publications (scientific papers as well as patents) as a measure of research activity. We can also establish the time evolution of the publications dealing with specific compounds or compound classes. Moreover, the mapping of compounds by establishing compound-based ...

  5. Physical Mapping and Refinement of the Painted Turtle Genome (Chrysemys picta) Inform Amniote Genome Evolution and Challenge Turtle-Bird Chromosomal Conservation.

    Science.gov (United States)

    Badenhorst, Daleen; Hillier, LaDeana W; Literman, Robert; Montiel, Eugenia Elisabet; Radhakrishnan, Srihari; Shen, Yingjia; Minx, Patrick; Janes, Daniel E; Warren, Wesley C; Edwards, Scott V; Valenzuela, Nicole

    2015-06-24

    Comparative genomics continues illuminating amniote genome evolution, but for many lineages our understanding remains incomplete. Here, we refine the assembly (CPI 3.0.3 NCBI AHGY00000000.2) and develop a cytogenetic map of the painted turtle (Chrysemys picta-CPI) genome, the first in turtles and in vertebrates with temperature-dependent sex determination. A comparison of turtle genomes with those of chicken, selected nonavian reptiles, and human revealed shared and novel genomic features, such as numerous chromosomal rearrangements. The largest conserved syntenic blocks between birds and turtles exist in four macrochromosomes, whereas rearrangements were evident in these and other chromosomes, disproving that turtles and birds retain fully conserved macrochromosomes for greater than 300 Myr. C-banding revealed large heterochromatic blocks in the centromeric region of only few chromosomes. The nucleolar-organizing region (NOR) mapped to a single CPI microchromosome, whereas in some turtles and lizards the NOR maps to nonhomologous sex-chromosomes, thus revealing independent translocations of the NOR in various reptilian lineages. There was no evidence for recent chromosomal fusions as interstitial telomeric-DNA was absent. Some repeat elements (CR1-like, Gypsy) were enriched in the centromeres of five chromosomes, whereas others were widespread in the CPI genome. Bacterial artificial chromosome (BAC) clones were hybridized to 18 of the 25 CPI chromosomes and anchored to a G-banded ideogram. Several CPI sex-determining genes mapped to five chromosomes, and homology was detected between yet other CPI autosomes and the globally nonhomologous sex chromosomes of chicken, other turtles, and squamates, underscoring the independent evolution of vertebrate sex-determining mechanisms.

  6. Localization and physical mapping of a plasmid-borne 23-kb nif gene cluster from Enterobacter agglomerans showing homology to the entire nif gene cluster of Klebsiella pneumoniae M5a1.

    Science.gov (United States)

    Singh, M; Kreutzer, R; Acker, G; Klingmüller, W

    1988-01-01

    A physical and genetical map of the plasmid pEA3 indigenous to Enterobacter agglomerans is presented. pEA3 is a 111-kb large plasmid containing a 23-kb large cluster of nif genes which shows extensive homology (Southern hybridization and heteroduplex analysis) to the entire nif gene cluster of Klebsiella pneumoniae (Kp) M5a1. All the nif genes on pEA3 are organized in the same manner as in K. pneumoniae, except nifJ, which is located on the left end of pEA3 nif gene cluster (near nifQB). A BamHI restriction map of pEA3 and a detailed restriction map of the 23-kb nif region on pEA3 is also presented. The nif genes of pEA3 showed a low level of acetylene reduction in Escherichia coli, demonstrating that these genes are functional and contain the whole genetic information required to fix nitrogen. The origin of vegetative replication (OriV) of pEA3 was localized about 5.5 kb from the right end of the nif gene cluster. In addition to pEA3, large plasmids from four other strains of E. agglomerans showed homology to all the Kp nif genes tested, indicating that in diazotrophic strains of E. agglomerans nif genes are usually located on plasmids. In contrast, in most of the free-living, nitrogen-fixing bacteria the nif genes are on chromosome.

  7. Map Projection

    CERN Document Server

    Ghaderpour, Ebrahim

    2014-01-01

    In this paper, we introduce some known map projections from a model of the Earth to a flat sheet of paper or map and derive the plotting equations for these projections. The first fundamental form and the Gaussian fundamental quantities are defined and applied to obtain the plotting equations and distortions in length, shape and size for some of these map projections.

  8. Harmonic Maps and Biharmonic Maps

    OpenAIRE

    Hajime Urakawa

    2015-01-01

    This is a survey on harmonic maps and biharmonic maps into (1) Riemannian manifolds of non-positive curvature, (2) compact Lie groups or (3) compact symmetric spaces, based mainly on my recent works on these topics.

  9. A long-range restriction map of the human chromosome 19q13 region: close physical linkage between CKMM and the ERCC-1 and ERCC-2 genes.

    NARCIS (Netherlands)

    H. Smeets (Hubert); L. Bachinski; M. Coerwinkel; J. Schepens; J.H.J. Hoeijmakers (Jan); M. van Duin (Mark); K-H. Grzeschik; C.A. Weber (Christine); P. de Jong (Pieter); M.J. Siciliano; B. Wieringa (Bé)

    1990-01-01

    textabstractWe report on the physical ordering of genes in a relatively small area of chromosome 19, segment q13, containing the locus for myotonic dystrophy (DM), the most frequent heritable muscular dystrophy of adulthood in man. DNAs from somatic cell hybrids with der 19q products that carry a br

  10. Genetic and physical fine-mapping of the Sc locus conferring indica-japonica hybrid sterility in rice (Oryza sativa L.)

    Institute of Scientific and Technical Information of China (English)

    YANG Cunyi; CHEN Zhongzheng; ZHUANG Chuxiong; MEI Mantong; LIU Yaoguang

    2004-01-01

    Hybrid sterility is a major hindrance to utilizing the heterosis in indica-japonica hybrids. To isolate a gene Sc conferring the hybrid sterility, the locus was mapped using molecular markers and an F2 population derived from a cross between near isogenic lines. A primary linkage analysis showed that Sc was linked closely with 4 markers on chromosome 3, on which the genetic distance between a marker RG227 and Sc was 0.07 cM. Chromosome walking with a rice TAC genomic library was carried out using RG227 as a starting probe, and a contig of ca. 320 kb covering the Sc locus was constructed. Two TAC clones, M45E14 and M90J01 that might cover the Sc locus, were partially sequenced. By searching the rice sequence databases with sequences of the TACs and RG227 a japonica rice BAC sequence, OSJNBb0078P24 was identified. By comparing the TAC and BAC sequences, six new PCR-based markers were developed. With these markers the Sc locus was further mapped to a region of 46 kb. The results suggest that the BAC OSJNBb0078P24 and TAC M45E14 contain the Sc gene. Six ORFs were predicted in the focused 46-kb region.

  11. Mapping urban and peri-urban breeding habitats of Aedes mosquitoes using a fuzzy analytical hierarchical process based on climatic and physical parameters.

    Science.gov (United States)

    Sarfraz, Muhammad Shahzad; Tripathi, Nagesh K; Faruque, Fazlay S; Bajwa, Usama Ijaz; Kitamoto, Asanobu; Souris, Marc

    2014-01-01

    The spread of dengue fever depends mainly on the availability of favourable breeding sites for its mosquito vectors around human dwellings. To investigate if the various factors influencing breeding habitats can be mapped from space, dengue indices, such as the container index, the house index and the Breteau index, were calculated from Ministry of Public health data collected three times annually in Phitsanulok, Thailand between 2009 and 2011. The most influential factors were found to be temperature, humidity, rainfall, population density, elevation and land cover. Models were worked out using parameters mostly derived from freely available satellite images and fuzzy logic software with parameter synchronisation and a predication algorithm based on data mining and the Decision Tree method. The models developed were found to be sufficiently flexible to accommodate additional parameters and sampling data that might improve prediction of favourable breeding hotspots. The algorithm applied can not only be used for the prediction of near real-time scenarios with respect to dengue, but can also be applied for monitoring other diseases influenced by environmental and climatic factors. The multi-criteria model presented is a cost-effective way of identifying outbreak hotspots and early warning systems lend themselves for development based on this strategy. The proposed approach demonstrates the successful utilisation of remotely sensed images to map mosquito breeding habitats. PMID:25599639

  12. Mapping urban and peri-urban breeding habitats of Aedes mosquitoes using a fuzzy analytical hierarchical process based on climatic and physical parameters

    Directory of Open Access Journals (Sweden)

    Muhammad Shahzad Sarfraz

    2014-12-01

    Full Text Available The spread of dengue fever depends mainly on the availability of favourable breeding sites for its mosquito vectors around human dwellings. To investigate if the various factors influencing breeding habitats can be mapped from space, dengue indices, such as the container index, the house index and the Breteau index, were calculated from Ministry of Public health data collected three times annually in Phitsanulok, Thailand between 2009 and 2011. The most influential factors were found to be temperature, humidity, rainfall, population density, elevation and land cover. Models were worked out using parameters mostly derived from freely available satellite images and fuzzy logic software with parameter synchronisation and a predication algorithm based on data mining and the Decision Tree method. The models developed were found to be sufficiently flexible to accommodate additional parameters and sampling data that might improve prediction of favourable breeding hotspots. The algorithm applied can not only be used for the prediction of near real-time scenarios with respect to dengue, but can also be applied for monitoring other diseases influenced by environmental and climatic factors. The multi-criteria model presented is a cost-effective way of identifying outbreak hotspots and early warning systems lend themselves for development based on this strategy. The proposed approach demonstrates the successful utilisation of remotely sensed images to map mosquito breeding habitats.

  13. Genome mapping of the horse

    OpenAIRE

    Lindgren, Gabriella

    2001-01-01

    Our ability to map and sequence whole genomes is one of the most important developments in biological science. It will provide us with an unprecedented insight into the genetic background of phenotypic traits, such as disease resistance, reproduction and growth and also makes it feasible to study the processes of genome evolution. The main focus of this thesis has been to develop a linkage map of the horse (Equus caballus) genome. A secondary aim was to expand the number of physically mapped ...

  14. The Physical Location of Gm-2 and Gm-6 in O.officinalis with BAC-FISH Based on Comparative RFLP Map of Wild Rice and Cultivated Rice

    Institute of Scientific and Technical Information of China (English)

    QIN Rui; WEI Wen-hui; NING Shun-bin; JIN Wei-wei; HE Guang-cun; SONG Yun-chun

    2002-01-01

    Rice BAC library is used widely in rice genome research due to its distinctive advantages over other library systems. In this study, two rice BAC clones closely linked to rice gall midge resistance, Gm-2 and Gm-6, were in situ hybridized to Oryza officinalis chromosomes. They were located on the long arm of chromosome 4 with FL 72.33% and 77.10% respectively and their FL was consistent with the selective marker of rice, RG214 and RZ569. The frequency of signal detection was 61.2% and 59.5% respectively.Our study was based on comparative RFLP map of wild rice, O. officinalis, and cultivated rice, O. sativa.

  15. Refined physical map of the human PAX2/HOX11/NFKB2 cancer gene region at 10q24 and relocalization of the HPV6AI1 viral integration site to 14q13.3-q21.1

    Directory of Open Access Journals (Sweden)

    Kahn Tomas

    2003-03-01

    Full Text Available Abstract Background Chromosome band 10q24 is a gene-rich domain and host to a number of cancer, developmental, and neurological genes. Recurring translocations, deletions and mutations involving this chromosome band have been observed in different human cancers and other disease conditions, but the precise identification of breakpoint sites, and detailed characterization of the genetic basis and mechanisms which underlie many of these rearrangements has yet to be resolved. Towards this end it is vital to establish a definitive genetic map of this region, which to date has shown considerable volatility through time in published works of scientific journals, within different builds of the same international genomic database, and across the differently constructed databases. Results Using a combination of chromosome and interphase fluorescent in situ hybridization (FISH, BAC end-sequencing and genomic database analysis we present a physical map showing that the order and chromosomal orientation of selected genes within 10q24 is CEN-CYP2C9-PAX2-HOX11-NFKB2-TEL. Our analysis has resolved the orientation of an otherwise dynamically evolving assembly of larger contigs upstream of this region, and in so doing verifies the order and orientation of a further 9 cancer-related genes and GOT1. This study further shows that the previously reported human papillomavirus type 6a DNA integration site HPV6AI1 does not map to 10q24, but that it maps at the interface of chromosome bands 14q13.3-q21.1. Conclusions This revised map will allow more precise localization of chromosome rearrangements involving chromosome band 10q24, and will serve as a useful baseline to better understand the molecular aetiology of chromosomal instability in this region. In particular, the relocation of HPV6AI1 is important to report because this HPV6a integration site, originally isolated from a tonsillar carcinoma, was shown to be rearranged in other HPV6a-related malignancies

  16. Land drainage system detection using IR and visual imagery taken from autonomous mapping airship and evaluation of physical and spatial parameters of suggested method

    Science.gov (United States)

    Koska, Bronislav; Křemen, Tomáš; Štroner, Martin; Pospíšil, Jiří; Jirka, Vladimír.

    2014-10-01

    An experimental approach to the land drainage system detection and its physical and spatial parameters evaluation by the form of pilot project is presented in this paper. The novelty of the approach is partly based on using of unique unmanned aerial vehicle - airship with some specific properties. The most important parameters are carrying capacity (15 kg) and long flight time (3 hours). A special instrumentation was installed for physical characteristic testing in the locality too. The most important is 30 meter high mast with 3 meter length bracket at the top with sensors recording absolute and comparative temperature, humidity and wind speed and direction in several heights of the mast. There were also installed several measuring units recording local condition in the area. Recorded data were compared with IR images taken from airship platform. The locality is situated around village Domanín in the Czech Republic and has size about 1.8 x 1.5 km. There was build a land drainage system during the 70-ties of the last century which is made from burnt ceramic blocks placed about 70 cm below surface. The project documentation of the land drainage system exists but real state surveying haveńt been never realized. The aim of the project was land surveying of land drainage system based on infrared, visual and its combination high resolution orthophotos (10 cm for VIS and 30 cm for IR) and spatial and physical parameters evaluation of the presented procedure. The orthophoto in VIS and IR spectrum and its combination seems to be suitable for the task.

  17. 思维导图方法在大学物理教学中的应用尝试%Using mind mapping method to assist the university physics teaching

    Institute of Scientific and Technical Information of China (English)

    王洪涛; 李艳

    2014-01-01

    In view of the present characteristics of university physical course in some engineering coleges, we attempt to reform the teaching method using the mind mapping and put forward a new teaching method about of only one question and one mind mapping in the whole lesson. The new teaching method has been carried out in whole semester, almost al the students agree with that the new method is favorable to their and the teaching effect improved significantly compared to the traditional teaching methods.%针对目前部分工科高校大学物理课程教学的特点,探索用思维导图方法辅助课堂教学的教学方法改革,提出一堂课一个疑问一幅图的教学方法。通过一个学期的教学实践证明,与传统的教学方法相比,学生对新的教学方法有较高的认同度,教学效果也有明显提高。

  18. The Galactic Census of High- and Medium-mass Protostars. III $^{12}$CO Maps and Physical Properties of Dense Clump Envelopes and their Embedding GMCs

    CERN Document Server

    Barnes, Peter J; O'Dougherty, Stefan N; Schap, William J; Muller, Erik

    2016-01-01

    We report the second complete molecular line data release from the {\\em Census of High- and Medium-mass Protostars} (CHaMP), a large-scale, unbiased, uniform mapping survey at sub-parsec resolution, of mm-wave line emission from 303 massive, dense molecular clumps in the Milky Way. This release is for all $^{12}$CO $J$=1$\\rightarrow$0 emission associated with the dense gas, the first from Phase II of the survey, which includes $^{12}$CO, $^{13}$CO, and C$^{18}$O. The observed clump emission traced by both $^{12}$CO and HCO$^+$ (from Phase I) shows very similar morphology, indicating that, for dense molecular clouds and complexes of all sizes, parsec-scale clumps contain $\\Xi$ ~ 75% of the mass, while only 25% of the mass lies in extended (>~ 10 pc) or "low density" components in these same areas. The mass fraction of all gas above a density 10$^9$ m$^{-3}$ is $\\xi_9$ >~ 50%. This suggests that parsec-scale clumps may be the basic building blocks of the molecular ISM, rather than the standard GMC concept. Usin...

  19. Causal mapping

    DEFF Research Database (Denmark)

    Rasmussen, Lauge Baungaard

    2006-01-01

    The lecture note explains how to use the causal mapping method as well as the theoretical framework aoosciated to the method......The lecture note explains how to use the causal mapping method as well as the theoretical framework aoosciated to the method...

  20. Affective Maps

    DEFF Research Database (Denmark)

    Salovaara-Moring, Inka

    . In particular, mapping environmental damage, endangered species, and human made disasters has become one of the focal point of affective knowledge production. These ‘more-than-humangeographies’ practices include notions of species, space and territory, and movement towards a new political ecology. This type...... of environmental knowledge production. It uses InfoAmazonia, the databased platform on Amazon rainforests, as an example of affective geo-visualization within information mapping that enhances embodiment in the experience of the information. Amazonia is defined as a digitally created affective (map)space within...

  1. MAPS of Cancer

    Science.gov (United States)

    Gray, Lincoln

    1998-01-01

    Our goal was to produce an interactive visualization from a mathematical model that successfully predicts metastases from head and neck cancer. We met this goal early in the project. The visualization is available for the public to view. Our work appears to fill a need for more information about this deadly disease. The idea of this project was to make an easily interpretable visualization based on what we call "functional maps" of disease. A functional map is a graphic summary of medical data, where distances between parts of the body are determined by the probability of disease, not by anatomical distances. Functional maps often beat little resemblance to anatomical maps, but they can be used to predict the spread of disease. The idea of modeling the spread of disease in an abstract multidimensional space is difficult for many people. Our goal was to make the important predictions easy to see. NASA must face this problem frequently: how to help laypersons and professionals see important trends in abstract, complex data. We took advantage of concepts perfected in NASA's graphics libraries. As an analogy, consider a functional map of early America. Suppose we choose travel times, rather than miles, as our measures of inter-city distances. For Abraham Lincoln, travel times would have been the more meaningful measure of separation between cities. In such a map New Orleans would be close to Memphis because of the Mississippi River. St. Louis would be close to Portland because of the Oregon Trail. Oklahoma City would be far from Little Rock because of the Cheyenne. Such a map would look puzzling to those of us who have always seen physical maps, but the functional map would be more useful in predicting the probabilities of inter-site transit. Continuing the analogy, we could predict the spread of social diseases such as gambling along the rivers and cattle rustling along the trails. We could simply print the functional map of America, but it would be more interesting

  2. Design of Tourist Map for Žirovnica community

    OpenAIRE

    Penič, Matej

    2006-01-01

    The procedure of contemporary planning and making physical and interactive map is described in this graduation thesis. Some differences between both maps are perceivable in the procedure of planning. The described procedure offers one of the possible solutions to adjust differences and make physical and interactive quality map. The basic parts of a tourist offer are quality physical and interactive maps. They can also serve as an advertising material, so their first aim is to be attractive. A...

  3. Mapping Biodiversity.

    Science.gov (United States)

    World Wildlife Fund, Washington, DC.

    This document features a lesson plan that examines how maps help scientists protect biodiversity and how plants and animals are adapted to specific ecoregions by comparing biome, ecoregion, and habitat. Samples of instruction and assessment are included. (KHR)

  4. Rethinking maps

    OpenAIRE

    Kitchin, Rob; Dodge, Martin

    2007-01-01

    In this paper we argue that cartography is profitably conceived as a processual, rather than representational, science. Building on recent analysis concerning the philosophical underpinnings of cartography we question the ontological security of maps, contending that it is productive to rethink cartography as ontogenetic in nature; that is maps emerge through practices and have no secure ontological status. Drawing on the concepts of transduction and technicity we contend that ...

  5. 思维导图在热力学与统计物理教学中应用的实践研究%Practice Research on Application about Mind Map in Thermodynamics and Statistical Physics Teaching

    Institute of Scientific and Technical Information of China (English)

    戴玉梅; 马凤才; 张会; 丁勇; 曾涛; 陈思

    2015-01-01

    使用思维导图制作软件NovaM ind对热力学与统计物理课程教学案例的教学过程进行改进研究。实践证明,在热力学与统计物理教学中,将思维导图和实际教学课程内容相结合,把知识点的讲解进行树状可视化教学,有利于师生知识结构的构建和教学内容全景的呈现,有利于学生巩固知识与查缺补漏,有利于学生全脑的开发。该教学模式可以推广到不同专业、不同课程的教学方法改革实践中去,一定能优化相应课程的教学效果。%The investigations are improved on the teaching process of “thermodynamics and statistical Physics”teaching case , as implemented in mind mapping software , NovaMind . The practice has proved that , in thermodynamics and statistical physics teaching ,com bination of mind mapping and teaching courses ,and tree -like visualization of teaching knowledge ,facilitate the construction of the knowledge structure for both teachers and students , the representation of panoramic teaching content , students consolidating knowledge and finding shortness ,students developing entire brains .This teaching model can be generalized to the revolution practice of teaching methods in different majors and courses .The model will be able to optimize the teaching efficiency of the course .

  6. Linking Mind-maps and Digital Maps with Hypertext

    OpenAIRE

    Klust, Jakub

    2013-01-01

    Information management is an important personal skill, therefore a concept allowing a better information management extended by a digital map was developed in this thesis. It focuses on two independent spaces. The first space is called abstract and handles information in form of spatial diagrams particularly mind-maps consisting of keywords and relations forming for instance a complex structures of ideas. The second space called physical aims to organize information on basis of assigned geogr...

  7. Mapping Deeply

    Directory of Open Access Journals (Sweden)

    Denis Wood

    2015-08-01

    Full Text Available This is a description of an avant la lettre deep mapping project carried out by a geographer and a number of landscape architecture students in the early 1980s. Although humanists seem to take the “mapping” in deep mapping more metaphorically than cartographically, in this neighborhood mapping project, the mapmaking was taken literally, with the goal of producing an atlas of the neighborhood. In this, the neighborhood was construed as a transformer, turning the stuff of the world (gas, water, electricity into the stuff of individual lives (sidewalk graffiti, wind chimes, barking dogs, and vice versa. Maps in the central transformer section of the atlas were to have charted this process in action, as in one showing the route of an individual newspaper into the neighborhood, then through the neighborhood to a home, and finally, as trash, out of the neighborhood in a garbage truck; though few of these had been completed when the project concluded in 1986. Resurrected in 1998 in an episode on Ira Glass’ This American Life, the atlas was finally published, as Everything Sings: Maps for a Narrative Atlas, in 2010 (and an expanded edition in 2013.

  8. Parametric mapping

    Science.gov (United States)

    Branch, Allan C.

    1998-01-01

    Parametric mapping (PM) lies midway between older and proven artificial landmark based guidance systems and yet to be realized vision based guidance systems. It is a simple yet effective natural landmark recognition system offering freedom from the need for enhancements to the environment. Development of PM systems can be inexpensive and rapid and they are starting to appear in commercial and industrial applications. Together with a description of the structural framework developed to generically describe robot mobility, this paper illustrates clearly the parts of any mobile robot navigation and guidance system and their interrelationships. Among other things, the importance of the richness of the reference map, and not necessarily the sensor map, is introduced, the benefits of dynamic path planners to alleviate the need for separate object avoidance, and the independence of the PM system to the type of sensor input is shown.

  9. CALS Mapping

    DEFF Research Database (Denmark)

    Collin, Ib; Nielsen, Povl Holm; Larsen, Michael Holm

    1998-01-01

    To enhance the industrial applications of CALS, CALS Center Danmark has developed a cost efficient and transparent assessment, CALS Mapping, to uncover the potential of CALS - primarily dedicated to small and medium sized enterprises. The idea behind CALS Mapping is that the CALS State...... of the enterprise is compared with a Reference Enterprise Model (REM). The REM is a CALS idealised enterprise providing full product support throughout the extended enterprise and containing different manufacturing aspects, e.g. component industry, process industry, and one-piece production. This CALS idealised...... enterprise is, when applied in a given organisation modified with respect to the industry regarded, hence irrelevant measure parameters are eliminated to avoid redundancy. This assessment of CALS Mapping, quantify the CALS potential of an organisation with the purpose of providing decision support to the top...

  10. Conformal Mapping for Multiple Terminals

    CERN Document Server

    Wang, Weimin; Wang, Qiang; Ren, Hao

    2015-01-01

    Conformal mapping is an important mathematical tool in many physical and engineering fields, especially in electrostatics, fluid mechanics, classical mechanics, and transformation optics. However in the existing textbooks and literatures, it is only adopted to solve the problems which have only two terminals. Two terminals with electric potential differences, pressure difference, optical path difference, etc., can be mapped conformally onto a solvable structure, e.g., a rectangle, where the two terminals are mapped onto two opposite edges of the rectangle. Here we show a conformal mapping method for multiple terminals, which is more common in practical applications. Through accurate analysis of the boundary conditions, additional terminals or boundaries are folded in the inner of the mapped rectangle. Then the solution will not be influenced. The method is described in several typical situations and two application examples are detailed. The first example is an electrostatic actuator with three electrodes. A ...

  11. Efficient construction of a physical map by Fiber-FISH of the CLN5 region: Refined assignment and long-range contig covering the critical region on 13q22

    Energy Technology Data Exchange (ETDEWEB)

    Klockars, T.; Savukoski, M.; Isosomppi, J. [National Public Health Institute, Helsinki (Finland)] [and others

    1996-07-01

    The variant form of late infantile neuronal ceroid lipofuscinosis (vLINCL, locus definition CLN5) represents a progressive brain disease with autosomal recessive inheritance. We have previously assigned the CLN5 locus to chromosome 13q21.1-132 between markers D13S160 and D13S162 by linkage analysis in Finnish families. The information on ancient recombination events obtained from linkage disequilibrium provided an efficient tool for further refining the assignment of the CLN5 locus. Isolation of two novel (CA){sub n} markers, COLAC1 and AC224, resulted in a dramatic restriction of the critical DNA region. We utilized the Fiber-FISH technique to orient and order the large DNA clones isolated by STSs and were able to eliminate almost totally the restriction digestion and PFGE step in the construction of the long-range DNA contig. Both linkage disequilibrium data and Fiber-FISH analyses assigned the CLN5 locus to a well-defined 200-kb region. Here we report a complete physical map of about 350 kb covering the critical chromosomal region of CLN5, which will facilitate the final isolation of the CLN5 gene. 31 refs., 4 figs., 2 tabs.

  12. Bacterial Blight Resistance Genes Anchored to Physics Map of Rice Genome%水稻抗白叶枯病基因在物理图谱上的锚定

    Institute of Scientific and Technical Information of China (English)

    鲍思元

    2013-01-01

    到目前为止,经国际注册确认和期刊报道的水稻白叶枯病抗性基因共35个.已被定位的抗性基因有26个,即第1染色体上有2个,Xa29(t)和xa34(t);第3染色体上有Xa11;第4染色体上有6个,Xa1、Xa2、Xa12、Xa14、Xa25(t)、Xa31(t);第5染色体上有xa5;第6染色体上有3个,Xa7、Xa27(t)、xa33(t);第7染色体上有xa8;第8染色体上有xa13;第11染色体上有9个,Xa3/Xa26、Xa4、Xa1O、Xa21、Xa22(t)、Xa23、Xa30(t)、Xa32(t)、Xa36(t);第12染色体上有2个,xa25、xa32(t).Xa1、xa5、xa13、Xa21、Xa23、xa25、Xa26、Xa27已成功克隆.文中利用GRAMENE网站公布的抗白叶枯病基因的分子标记,在日本晴的测序图谱Gramene Annotated NipponbareSequence2009上进行物理图谱锚定,将已定位的26个抗白叶枯病基因锚定在其物理图谱的26个位点上,为抗白叶枯病基因的基因克隆、分子标记辅助选择奠定了基础.%Up to the present day, there are a total of 35 bacterial blight resistance genes registered internationally or reported in international journals. Among them, 26 genes were mapped, including Xa29(t) , xa34(t) on chromosome 1; Xall on chromosome 3; Xal, Xal, XaYl, Xal4, Xa25(t) , Xa31(t) on chromosome 4; xa5 on chromosome 5; Xal, Xall(t) , xa33(t) on chromosome 6; xd& on chromosome 7; xal3 on chromosome 8; Xa3/Xa26, XaA, XaW, Xa21 , Xa22(t) , Xa23, Xa30(t) , Xa32(t) , Xa36(t) on chromosome 11; xa25, xa32(t) on chromosome 12. 8 bacterial blight resistance genes were cloned, including Xal, xa5, xal3 , Xa21 , Xa23, xa25 , Xa26 and Xa21. Molecular markers of bacterial blight resistance genes from GRAMENE website were anchored to the physics map of Gramene Annotated Nipponbare Sequence 2009. 26 bacterial blight resistance genes were anchored to the physics map 26 units place through this research. The work laid the foundation for cloning bacterial blight resistance genes and the marker-assisted selection in breeding programs.

  13. Mapping Resilience

    DEFF Research Database (Denmark)

    Carruth, Susan

    2015-01-01

    relationship between resilience and energy planning, suggesting that planning in, and with, time is a core necessity in this domain. It then reviews four examples of graphically mapping with time, highlighting some of the key challenges, before tentatively proposing a graphical language to be employed by...

  14. Mole Mapping.

    Science.gov (United States)

    Crippen, Kent J.; Curtright, Robert D.; Brooks, David W.

    2000-01-01

    The abstract nature of the mole and its applications to problem solving make learning the concept difficult for students, and teaching the concept challenging for teachers. Presents activities that use concept maps and graphing calculators as tools for solving mole problems. (ASK)

  15. Mapping filmmaking

    DEFF Research Database (Denmark)

    Gilje, Øystein; Frølunde, Lisbeth; Lindstrand, Fredrik;

    2010-01-01

    This chapter concerns mapping patterns in regards to how young filmmakers (age 15 – 20) in the Scandinavian countries learn about filmmaking. To uncover the patterns, we present portraits of four young filmmakers who participated in the Scandinavian research project Making a filmmaker. The focus ...

  16. Participatory maps

    DEFF Research Database (Denmark)

    Salovaara-Moring, Inka

    looks at computer-assisted cartography as part of environmental knowledge production. It uses InfoAmazonia, the databased platform on Amazon rainforests, as an example of affective geo-visualization within information mapping that enhances embodiment in the experience of the information. Amazonia...

  17. Energetic map

    International Nuclear Information System (INIS)

    This report explains the energetic map of Uruguay as well as the different systems that delimits political frontiers in the region. The electrical system importance is due to the electricity, oil and derived , natural gas, potential study, biofuels, wind and solar energy

  18. Covariance mapping techniques

    Science.gov (United States)

    Frasinski, Leszek J.

    2016-08-01

    Recent technological advances in the generation of intense femtosecond pulses have made covariance mapping an attractive analytical technique. The laser pulses available are so intense that often thousands of ionisation and Coulomb explosion events will occur within each pulse. To understand the physics of these processes the photoelectrons and photoions need to be correlated, and covariance mapping is well suited for operating at the high counting rates of these laser sources. Partial covariance is particularly useful in experiments with x-ray free electron lasers, because it is capable of suppressing pulse fluctuation effects. A variety of covariance mapping methods is described: simple, partial (single- and multi-parameter), sliced, contingent and multi-dimensional. The relationship to coincidence techniques is discussed. Covariance mapping has been used in many areas of science and technology: inner-shell excitation and Auger decay, multiphoton and multielectron ionisation, time-of-flight and angle-resolved spectrometry, infrared spectroscopy, nuclear magnetic resonance imaging, stimulated Raman scattering, directional gamma ray sensing, welding diagnostics and brain connectivity studies (connectomics). This review gives practical advice for implementing the technique and interpreting the results, including its limitations and instrumental constraints. It also summarises recent theoretical studies, highlights unsolved problems and outlines a personal view on the most promising research directions.

  19. Geometry of basic statistical physics mapping

    Science.gov (United States)

    Angelelli, Mario; Konopelchenko, Boris

    2016-09-01

    The geometry of hypersurfaces defined by the relation which generalizes the classical formula for free energy in terms of microstates is studied. The induced metric, the Riemann curvature tensor, the Gauss–Kronecker curvature and its associated entropy are calculated. A special class of ideal statistical hypersurfaces is analyzed in detail. Non-ideal hypersurfaces and singularities similar to those of the phase transitions are considered. The tropical limit of the statistical hypersurfaces and the double scaling tropical limit are discussed too.

  20. MAPPING INNOVATION

    DEFF Research Database (Denmark)

    Thuesen, Christian Langhoff; Koch, Christian

    2011-01-01

    By adopting a theoretical framework from strategic niche management research (SNM) this paper presents an analysis of the innovation system of the Danish Construction industry. The analysis shows a multifaceted landscape of innovation around an existing regime, built around existing ways of working...... and developed over generations. The regime is challenged from various niches and the socio-technical landscape through trends as globalization. Three niches (Lean Construction, BIM and System Deliveries) are subject to a detailed analysis showing partly incompatible rationales and various degrees of innovation...... potential. The paper further discusses how existing policymaking operates in a number of tensions one being between government and governance. Based on the concepts from SNM the paper introduces an innovation map in order to support the development of meta-governance policymaking. By mapping some...

  1. Cognitive maps

    DEFF Research Database (Denmark)

    Minder, Bettina; Laursen, Linda Nhu; Lassen, Astrid Heidemann

    2014-01-01

    This paper identifies three different perspectives on the relationship between design and innovation and explains implication of these different world-views of the interrelations between innovation and design. The study is based on empirical data from a series of semi-structured expert interviews...... of the interrelation becomes increasingly important. This paper seeks to clarify this interrelation and discuss how design is used in innovation.......This paper identifies three different perspectives on the relationship between design and innovation and explains implication of these different world-views of the interrelations between innovation and design. The study is based on empirical data from a series of semi-structured expert interviews....... Conceptual clustering is used to analyse and order information according to concepts or variables from within the data. The cognitive maps identified are validated through the comments of some of the same experts. The study presents three cognitive maps and respective world-views explaining how the design...

  2. A PiggyBac-based recessive screening method to identify pluripotency regulators.

    Directory of Open Access Journals (Sweden)

    Ge Guo

    Full Text Available Phenotype driven genetic screens allow unbiased exploration of the genome to discover new biological regulators. Bloom syndrome gene (Blm deficient embryonic stem (ES cells provide an opportunity for recessive screening due to frequent loss of heterozygosity. We describe a strategy for isolating regulators of mammalian pluripotency based on conversion to homozygosity of PiggyBac gene trap insertions combined with stringent selection for differentiation resistance. From a screen of 2000 mutants we obtained a disruptive integration in the Tcf3 gene. Homozygous Tcf3 mutants showed impaired differentiation and enhanced self-renewal. This phenotype was reverted in a dosage sensitive manner by excision of one or both copies of the gene trap. These results provide new evidence confirming that Tcf3 is a potent negative regulator of pluripotency and validate a forward screening methodology to identify modulators of pluripotent stem cell biology.

  3. piggyBac-based insertional mutagenesis in the presence of stably integrated P elements in Drosophila

    OpenAIRE

    Häcker, Udo; Nystedt, Sverker; Barmchi, Mojgan Padash; Horn, Carsten; Wimmer, Ernst A.

    2003-01-01

    P element-mediated mutagenesis has been used to disrupt an estimated 25% of genes essential for Drosophila adult viability. Mutation of all genes in the fly genome, however, poses a problem, because P elements show significant hotspots of integration. In addition, advanced screening scenarios often require the use of P element-based tools like the generation of germ-line mosaics using FLP recombinase-mediated recombination or gene misexpression using the UAS/Gal4 system. These techniqu...

  4. Physical mapping of three fruit ripening genes:Endopolygalacturonase,ACC oxidase and ACC synthase from apple(Malus x domestica) in an apple rootstock A106(Malus sieboldii

    Institute of Scientific and Technical Information of China (English)

    ZHUJIMEI; SEGARDINER; 等

    1995-01-01

    The apple rootstock,A106(Malus sieboldii),had 17 bivalents in pollen mother cells at meiotic metaphase 1,and 17 chromosomes in a haploid pollen cell.Karyotypes were prepared from root-tip cells with 2n=34 chromosomes,Seven out of 82 karyotypes(8.5%) showed one pari of satellites at the end of the short arm of chromosome 3.C-bands were shown on 6 pairs of chromosomes 2,4,6,8,14,and 16 near the telomeric regions of short arms.Probes for three ripening-related genes from Malus x domestica:endopolygalacturonase(EPG,0.6kb),ACC oxidase(1.2kb),and ACC synthase(2kb)were hybridized in situ to metaphase chromosomes of A106.Hybridization sites for the EPG gene were observed on the long arm of chromosome 14 in 15 out of 16 replicate spreads and proximal to the centromere of chromosomes 6 and 11.For the ACC oxidase gene,hylridization sites were observed in the telomeric region of the short arm of chromosomes 5 and 11 in 87% and 81% of 16 spreads respectively,proxiaml to the centromere of chromosome 1 in 81% of the spreads,and on the long arm of chromosome 13 in 50% of the spreads. Physical mapping of three fruit ripening genes in an apple rootstock A106.Twenty five spreads were studied for the ACC synthase gene and hybridization sites were observed in the telomeric region of the short arm of chromosome 12 in 96% of the spreads.chromosomes 9 and 10 in 76% of the spreads,and chromosome 17 in 56% of the spreads.

  5. Characterization and solvability of quasipolynomial symplectic mappings

    Energy Technology Data Exchange (ETDEWEB)

    Hernandez-Bermejo, Benito [ESCET (Edificio Departamental II), Universidad Rey Juan Carlos, Calle Tulipan S/N, 28933-Mostoles-Madrid (Spain); Brenig, Leon [Service de Physique Theorique et Mathematique, Universite Libre de Bruxelles, Campus Plaine, CP 231, Boulevard du Triomphe, B-1050 Brussels (Belgium)

    2004-02-13

    Quasipolynomial (or QP) mappings constitute a wide generalization of the well-known Lotka-Volterra mappings, of importance in different fields such as population dynamics, physics, chemistry or economy. In addition, QP mappings are a natural discrete-time analogue of the continuous QP systems, which have been extensively used in different pure and applied domains. After presenting the basic definitions and properties of QP mappings in a previous paper, the purpose of this work is to focus on their characterization by considering the existence of symplectic QP mappings. In what follows such QP symplectic maps are completely characterized. Moreover, use of the QP formalism can be made in order to demonstrate that all QP symplectic mappings have an analytical solution that is explicitly and generally constructed. Examples are given.

  6. Integrated Device Control System using Google Maps

    Directory of Open Access Journals (Sweden)

    Takahiro KOITA

    2012-01-01

    Full Text Available This paper proposes an integrated device control system called Control Architecture for Networked Devices in Location Environments (CANDLE, which controls devices with Google Maps. Google Maps provides a global map interface and flexible APIs. The main motivation for this study is to provide a search and control system for physically distributed devices using Google Maps. To achieve this, the requirements of the system are (1 to coordinate device information with map information on Google Maps and (2 all distributed information has to be integrated on one interface. Device information is a set of information to control devices on an interface of Google Maps. CANDLE is an integrated device control system using Google Maps designed to meet these requirements. Using CANDLE, a user can control physically distributed devices through a web browser. In CANDLE, all device information is integrated into one map. CANDLE enables device control, searches, and display of information on distributed devices on an interface of Google Maps through a web browser. By using a web browser, a user can control devices from anywhere even if the devices are distributed globally. Thus, CANDLE is quite useful for distributed device control systems such as security, healthcare, and global monitoring systems.

  7. The History Of Genome Mapping In Fragaria Spp.

    Directory of Open Access Journals (Sweden)

    Mohamed Abdel-Rahman Moustafa Abdel-Wahab

    2014-12-01

    Full Text Available This overview summarizes the research programs devoted to mapping the genomes within Fragaria genus. A few genetic linkage maps of diploid and octoploid Fragaria species as well as impressive physical map of F. vesca were developed in the last decade and resulted in the collection of data useful for further fundamental and applied studies. The information concerning the rules for proper preparation of mapping population, the choice of markers useful for generating linkage map, the saturation of existing maps with new markers linked to economically important traits, as well as problems faced during mapping process are presented in this paper.

  8. Projective mapping

    DEFF Research Database (Denmark)

    Dehlholm, Christian; Brockhoff, Per B.; Bredie, Wender Laurentius Petrus

    2012-01-01

    the applied framework, semantic restrictions, the choice of type of assessors and the validation of product separations. The applied framework concerns the response surface as presented to the assessor in different shapes, e.g. rectangular, square or round. Semantic restrictions are a part of the assessor...... instructions and influence heavily the product placements and the descriptive vocabulary (Dehlholm et.al., 2012b). The type of assessors performing the method influences results with an extra aspect in Projective Mapping compared to more analytical tests, as the given spontaneous perceptions are much dependent...... on the assessor’s way of thinking. Furthermore, a suggestion for validating product separations is proposed for the case where Multiple Factor Analysis is chosen for data analysis (Dehlholm, Brockhoff & Bredie, 2012a)....

  9. Physical and transcript map of the region between D6S264 and D6S149 on chromosome 6q27, the minimal region of allele loss in sporadic epithelial ovarian cancer

    DEFF Research Database (Denmark)

    Liu, Ying; Emilion, Gracy; Mungall, Andrew J;

    2002-01-01

    We have previously shown a high frequency of allele loss at D6S193 (62%) on chromosomal arm 6q27 in ovarian tumours and mapped the minimal region of allele loss between D6S297 and D6S264 (3 cM). We isolated and mapped a single non-chimaeric YAC (17IA12, 260-280 kb) containing D6S193 and D6S297. A...

  10. Arterial mapping of lower limbs

    International Nuclear Information System (INIS)

    A bibliographic review is realized in the arterial mapping of lower limbs by ultrasonographic. The physical properties of the Doppler effect applied to diagnostic ultrasound are described. The anatomical characteristics of the general arterial system and specifically of the lower limbs arterial system are mentioned. Pathologies of the ischemic arterial disease of lower limbs are explained. The study characteristics of lower limbs arterial mapping are documented to determine its importance as appropriate method for the assessment of lower limb ischemia. An adequate arterial mapping of lower limbs is recognized in atherosclerotic ischemic disease as a reliable initial method alternative to arteriography. Arteriography is considered as reference pattern for therapeutic decision making in patients with critical ischemia of the lower limbs. Non-invasive methods to assess the arterial system of lower limbs has evidenced the advantages of the arterial mapping with Doppler, according to the consulted literature. The combination morphological and hemodynamic information has been possible and a map of the explored zone is made. The arterial mapping by ultrasonography has offered similar reliability to angiography

  11. Human Mind Maps

    Science.gov (United States)

    Glass, Tom

    2016-01-01

    When students generate mind maps, or concept maps, the maps are usually on paper, computer screens, or a blackboard. Human Mind Maps require few resources and little preparation. The main requirements are space where students can move around and a little creativity and imagination. Mind maps can be used for a variety of purposes, and Human Mind…

  12. Physical Abuse

    Science.gov (United States)

    ... Additional Resources Return to: What is Elder Abuse? Physical Abuse Physical abuse is physical force or violence that results in ... may be acquaintances, sons, daughters, grandchildren, or others. Physical abuse that is perpetrated by spouses or intimate partners ...

  13. Maps & minds : mapping through the ages

    Science.gov (United States)

    U.S. Geological Survey

    1984-01-01

    Throughout time, maps have expressed our understanding of our world. Human affairs have been influenced strongly by the quality of maps available to us at the major turning points in our history. "Maps & Minds" traces the ebb and flow of a few central ideas in the mainstream of mapping. Our expanding knowledge of our cosmic neighborhood stems largely from a small number of simple but grand ideas, vigorously pursued.

  14. Clone-array pooled shotgun mapping and sequencing: design and analysis of experiments

    OpenAIRE

    Csürös, Miklós; Li, Bingshan; Milosavljevic, Aleksandar

    2003-01-01

    This paper studies sequencing and mapping methods that rely solely on pooling and shotgun sequencing of clones. First, we scrutinize and improve the recently proposed Clone-Array Pooled Shotgun Sequencing (CAPSS) method, which delivers a BAC-linked assembly of a whole genome sequence. Secondly, we introduce a novel physical mapping method, called Clone-Array Pooled Shotgun Mapping (CAPS-MAP), which computes the physical ordering of BACs in a random library. Both CAPSS and CAPS-MAP construct s...

  15. Lunar Map Catalog

    Data.gov (United States)

    National Aeronautics and Space Administration — The Lunar Map Catalog includes various maps of the moon's surface, including Apollo landing sites; earthside, farside, and polar charts; photography index maps;...

  16. An STS-based map of the human genome

    Energy Technology Data Exchange (ETDEWEB)

    Hudson, T.J.; Stein, L.D.; Gerety, S.S. [and others

    1995-12-22

    A physical map has been constructed of the human genome containing 15,086 sequence-tagged sites (STSs), with an average spacing of 199 kilobases. The project involved assembly of a radiation hybrid map of the human genome containing 5264 loci. This information was combined with the results of STS-content screening of 10,850 loci against a yeast artificial chromosome library to produce an integrated map, anchored by the radiation hybrid and genetic maps. The map provides radiation hybrid coverage of 99 percent and physical coverage of 94 percent of the human genome. The map also represents an early step in an international project to generate a transcript map of the human genome, with more than 3235 expressed sequences localized. The STSs in the map provide a scaffold for initiating large-scale sequencing of the human genome.

  17. Mapping with the Masses: Google Map Maker

    Science.gov (United States)

    Pfund, J.

    2008-12-01

    After some 15,000 years of map making, which saw the innovations of cardinal directions, map projections for a spherical earth, and GIS analysis, many parts of the world still appear as the "Dark Continent" on modern maps. Google Map Maker intends to shine a light on these areas by tapping into the power of the GeoWeb. Google Map Maker is a website which allows you to collaborate with others on one unified map to add, edit, locate, describe, and moderate map features, such as roads, cities, businesses, parks, schools and more, for certain regions of the world using Google Maps imagery. In this session, we will show some examples of how people are mapping with this powerful tool as well as what they are doing with the data. With Google Map Maker, you can become a citizen cartographer and join the global network of users helping to improve the quality of maps and local information in your region of interest. You are invited to map the world with us!

  18. Baryon mapping of quark systems

    CERN Document Server

    Sambataro, M

    1995-01-01

    We discuss a mapping procedure from a space of colorless three-quark clusters into a space of elementary baryons and illustrate it in the context of a three-color extension of the Lipkin model recently developed. Special attention is addressed to the problem of the formation of unphysical states in the mapped space. A correspondence is established between quark and baryon spaces and the baryon image of a generic quark operator is defined both in its Hermitian and non-Hermitian forms. Its spectrum (identical in the two cases) is found to consist of a physical part containing the same eigenvalues of the quark operator in the cluster space and an unphysical part consisting only of zero eigenvalues. A physical subspace of the baryon space is also defined where the latter eigenvalues are suppressed. The procedure discussed is quite general and applications of it can be thought also in the correspondence between systems of 2n fermions and n bosons.

  19. Concept mapping in lectures.

    OpenAIRE

    Lavery, Janet; Low, Adam

    2008-01-01

    Concept maps are an aid to a deep learning strategy. Developing concept maps would help students understand the relationships between concepts both within a domain and across related domains. To encourage students to explore the use of concept maps, we have integrated concept maps into a module’s lectures. We have trialled: a concept map developed by experts and given to students; another concept map developed collaboratively by the students in an interactive lecture supported by a free-tex...

  20. Quantitive DNA Fiber Mapping

    Energy Technology Data Exchange (ETDEWEB)

    Lu, Chun-Mei; Wang, Mei; Greulich-Bode, Karin M.; Weier, Jingly F.; Weier, Heinz-Ulli G.

    2008-01-28

    Several hybridization-based methods used to delineate single copy or repeated DNA sequences in larger genomic intervals take advantage of the increased resolution and sensitivity of free chromatin, i.e., chromatin released from interphase cell nuclei. Quantitative DNA fiber mapping (QDFM) differs from the majority of these methods in that it applies FISH to purified, clonal DNA molecules which have been bound with at least one end to a solid substrate. The DNA molecules are then stretched by the action of a receding meniscus at the water-air interface resulting in DNA molecules stretched homogeneously to about 2.3 kb/{micro}m. When non-isotopically, multicolor-labeled probes are hybridized to these stretched DNA fibers, their respective binding sites are visualized in the fluorescence microscope, their relative distance can be measured and converted into kilobase pairs (kb). The QDFM technique has found useful applications ranging from the detection and delineation of deletions or overlap between linked clones to the construction of high-resolution physical maps to studies of stalled DNA replication and transcription.

  1. A comparative map viewer integrating genetic maps for Brassica and Arabidopsis

    Directory of Open Access Journals (Sweden)

    Erwin Timothy A

    2007-07-01

    Full Text Available Abstract Background Molecular genetic maps provide a means to link heritable traits with underlying genome sequence variation. Several genetic maps have been constructed for Brassica species, yet to date, there has been no simple means to compare this information or to associate mapped traits with the genome sequence of the related model plant, Arabidopsis. Description We have developed a comparative genetic map database for the viewing, comparison and analysis of Brassica and Arabidopsis genetic, physical and trait map information. This web-based tool allows users to view and compare genetic and physical maps, search for traits and markers, and compare genetic linkage groups within and between the amphidiploid and diploid Brassica genomes. The inclusion of Arabidopsis data enables comparison between Brassica maps that share no common markers. Analysis of conserved syntenic blocks between Arabidopsis and collated Brassica genetic maps validates the application of this system. This tool is freely available over the internet on http://bioinformatics.pbcbasc.latrobe.edu.au/cmap. Conclusion This database enables users to interrogate the relationship between Brassica genetic maps and the sequenced genome of A. thaliana, permitting the comparison of genetic linkage groups and mapped traits and the rapid identification of candidate genes.

  2. Optical Polarimetric Mapping of Ceres

    Science.gov (United States)

    Yang, Bin; Li, Jian-Yang; Kelley, Michael S.

    2016-10-01

    The dwarf planet Ceres, with one quarter of its mass possibly as water, is of particular importance to understanding the origin and the evolution history of water in the inner solar system. It is also a real-life laboratory to study astrobiology. NASA's Dawn is returning detailed geological maps of Ceres until the end of this year. As a complement to the Dawn mission, using SPHERE/ZIMPOL at one of Very Large Telescopes in Chile, we obtained the optical polarimetric maps in the I and V band of the whole surface of Ceres in July and August, 2015. Polarimetric maps of Ceres are sensitive to the physical conditions (such as packing density and particle size distribution) and composition of its surface regolith. The comparative studies between our polarimetric maps and Dawn maps help us to understand the geological evolution and the space weathering processes on Ceres' surface. At the time of the ZIMPOL observations, with the best spatial resolution of about 0.02 arcsecond (equivalent to 30 km), we effectively obtained about 700 independent measurements of the surface in one polarimetric set. I will present the SPHERE observations and discuss our major findings.

  3. DigiDocMap conceptual maps editor and Topic Maps norms = El editor de mapas conceptuales DigiDocMap y la norma Topic Maps

    OpenAIRE

    Rovira, Cristòfol

    2005-01-01

    The interest for the graphic representation of ideas or concepts has become of great interest thanks to the Web development. The navigation maps show the web site page structure and allow guiding the browsing by means of this "physical" structure, but they are unable to represent the conceptual structure of the contents of those pages. To provide guidance though the semantic structure of the contents of a web the use of conceptual maps is necessary. At this moment there is some confusion on w...

  4. Mapping the Heart

    Science.gov (United States)

    Hulse, Grace

    2012-01-01

    In this article, the author describes how her fourth graders made ceramic heart maps. The impetus for this project came from reading "My Map Book" by Sara Fanelli. This book is a collection of quirky, hand-drawn and collaged maps that diagram a child's world. There are maps of her stomach, her day, her family, and her heart, among others. The…

  5. USGS Map Indices Overlay Map Service from The National Map

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — The USGS Map Indices service from The National Map (TNM) consists of 1x1 Degree, 30x60 Minute (100K), 15 Minute (63K), 7.5 Minute (24K), and 3.75 Minute grid...

  6. Inertial Navigation and Mapping for Autonomous Vehicles

    OpenAIRE

    Skoglund, Martin

    2014-01-01

    Navigation and mapping in unknown environments is an important building block for increased autonomy of unmanned vehicles, since external positioning systems can be susceptible to interference or simply being inaccessible. Navigation and mapping require signal processing of vehicle sensor data to estimate motion relative to the surrounding environment and to simultaneously estimate various properties of the surrounding environment. Physical models of sensors, vehicle motion and external influ...

  7. Mapping in the Oiapoque Indigenous Territories

    OpenAIRE

    Mazurek, Rosélis Remor de Souza

    2016-01-01

    Participatory mapping for land use planning in the Indigenous Territories (Terras Indígenas) of Oiapoque, in northeastern Amazonia has been carried out by governmental and non-governmental organizations in partnership with indigenous institutions. The first mapping exercise was carried out through regional workshops with a selected group of indigenous (Indigenous Environmental Agents) using a georeferenced Landsat satellite image and drawing physical and cultural aspects of the territory over...

  8. VEGETATION MAPPING IN WETLANDS

    Directory of Open Access Journals (Sweden)

    F. PEDROTTI

    2004-01-01

    Full Text Available The current work examines the main aspects of wetland vegetation mapping, which can be summarized as analysis of the ecological-vegetational (ecotone gradients; vegetation complexes; relationships between vegetation distribution and geomorphology; vegetation of the hydrographic basin lo which the wetland in question belongs; vegetation monitoring with help of four vegetation maps: phytosociological map of the real and potential vegetation, map of vegetation dynamical tendencies, map of vegetation series.

  9. Map Projection Transitions

    OpenAIRE

    Nedjeljko Frančula; Miljenko Lapaine

    2013-01-01

    Map Projection Transitions is a very successful web application about map projections. The web page (http://www.jasondavies.com/maps/transition) pre­sents a world map with graticule and country borders in the oblique Aitoff projection, with the South Pole. The map is not static, but animated. The South Pole moves toward the bottom and Earth rotates around its poles. The animation lasts five seconds, after which the projection changes and movement continues for five seconds, after which the pr...

  10. Genetic mapping of habitual substance use, obesity-related traits, responses to mental and physical stress, and heart rate and blood pressure measurements reveals shared genes that are overrepresented in the neural synapse

    OpenAIRE

    Nikpay, Majid; Šeda, Ondrej; Tremblay, Johanne; Petrovich, Milan; Gaudet, Daniel; Kotchen, Theodore A.; Cowley, Allen W.; Hamet, Pavel

    2012-01-01

    Links between substance use habits, obesity, stress and the related cardiovascular outcomes can be, in part, because of loci with pleiotropic effects. To investigate this hypothesis, we performed genome-wide mapping in 119 multigenerational families from a population in the Saguenay-Lac-St-Jean region with a known founder effect using 58 000 single-nucleotide polymorphisms and 437 microsatellite markers to identify genetic components of the following factors: habitual alcohol, tobacco and cof...

  11. Identification of physical models

    DEFF Research Database (Denmark)

    Melgaard, Henrik

    1994-01-01

    The problem of identification of physical models is considered within the frame of stochastic differential equations. Methods for estimation of parameters of these continuous time models based on descrete time measurements are discussed. The important algorithms of a computer program for ML or MAP...... design of experiments, which is for instance the design of an input signal that are optimal according to a criterion based on the information provided by the experiment. Also model validation is discussed. An important verification of a physical model is to compare the physical characteristics...... of the model with the available prior knowledge. The methods for identification of physical models have been applied in two different case studies. One case is the identification of thermal dynamics of building components. The work is related to a CEC research project called PASSYS (Passive Solar Components...

  12. Google Maps: You Are Here

    Science.gov (United States)

    Jacobsen, Mikael

    2008-01-01

    Librarians use online mapping services such as Google Maps, MapQuest, Yahoo Maps, and others to check traffic conditions, find local businesses, and provide directions. However, few libraries are using one of Google Maps most outstanding applications, My Maps, for the creation of enhanced and interactive multimedia maps. My Maps is a simple and…

  13. Web Mapping Using Logo on Map

    OpenAIRE

    Ximing Hou; Hao Shi

    2013-01-01

    The newly proposed Logo on Map (LoM) system consists of three modules: picture extraction module (PEM), logo matching module (LMM) and web mapping module (WMM). Since the first two modules were covered in our previous paper, the third module WMM is described here to present a complete LoM system. Current research is focused on geo-location distribution of brands on Google Maps. Pictures taken by ordinary people are extracted using Picture Extraction Module (PEM). The pictures cont...

  14. An Introduction to the Space Mapping Technique

    DEFF Research Database (Denmark)

    Bakr, Mohamed H.; Bandler, John W.; Madsen, Kaj;

    2001-01-01

    The space mapping technique is intended for optimization of engineering models which involve very expensive function evaluations. It is assumed that two different models of the same physical system are available: Besides the expensive model of primary interest (denoted the fine model), access...... to a cheaper (coarse) model is assumed which may be less accurate. The main idea of the space mapping technique is to use the coarse model to gain information about the fine model, and to apply this in the search for an optimal solution of the latter. Thus the technique iteratively establishes a mapping...... for engineering purposes. Thus the space mapping technique may be considered a preprocessing technique that perhaps must be succeeded by use of classical optimization techniques. We present an automatic scheme which integrates the space mapping and classical techniques....

  15. A gene map of the human genome

    Energy Technology Data Exchange (ETDEWEB)

    Schuler, G.D.; Boguski, M.S. [National Library of Medicine, Bethesda, MD (United States); Stewart, E.A. [Stanford Univ. School of Medicine, CA (United States)] [and others

    1996-10-25

    The human genome is thought to harbor 50,000 to 100,000 genes, of which about half have been sampled to date in the form of expressed sequence tags. An international consortium was organized to develop and map gene-based sequence tagged site markers on a set of two radiation hybrid panels and a yeast artificial chromosome library. More than 16,000 human genes have been mapped relative to a framework map that contains about 1000 polymorphic genetic markers. The gene map unifies the existing genetic and physical maps with the nucleotide and protein sequence databases in a fashion that should speed the discovery of genes underlying inherited human disease. 45 refs., 4 figs., 3 tabs.

  16. Web Mapping Using Logo on Map

    Directory of Open Access Journals (Sweden)

    Ximing Hou

    2013-01-01

    Full Text Available The newly proposed Logo on Map (LoM system consists of three modules: picture extraction module(PEM, logo matching module (LMM and web mapping module (WMM. Since the first two modules werecovered in our previous paper, the third module WMM is described here to present a complete LoM system.Current research is focused on geo-location distribution of brands on Google Maps. Pictures taken byordinary people are extracted using Picture Extraction Module (PEM. The pictures containing relevantlogos are obtained via Logo Matching Module (LMM. Brand distributions are overlaid on Google Maps.In this paper, GPS and brands are briefly described, and the implementation of Web Mapping Module(WMM based on Google Maps API is detailed. Then several experiments are carried out on the selectedtop brands. Finally the LMM-pictures are mapped on the Google Maps and the geographical distributionsof the brands are visualised. Brand uniqueness is discussed and conclusion is drawn that with uniquebrand names web mapping can visually reflect the real economic activities of a company in the world.

  17. Web Mapping Using Logo on Map

    Directory of Open Access Journals (Sweden)

    Ximing Hou

    2012-12-01

    Full Text Available The newly proposed Logo on Map (LoM system consists of three modules: picture extraction module (PEM, logo matching module (LMM and web mapping module (WMM. Since the first two modules were covered in our previous paper, the third module WMM is described here to present a complete LoM system. Current research is focused on geo-location distribution of brands on Google Maps. Pictures taken by ordinary people are extracted using Picture Extraction Module (PEM. The pictures containing relevant logos are obtained via Logo Matching Module (LMM. Brand distributions are overlaid on Google Maps. In this paper, GPS and brands are briefly described, and the implementation of Web Mapping Module (WMM based on Google Maps API is detailed. Then several experiments are carried out on the selected top brands. Finally the LMM-pictures are mapped on the Google Maps and the geographical distributions of the brands are visualised. Brand uniqueness is discussed and conclusion is drawn that with unique brand names web mapping can visually reflect the real economic activities of a company in the world.

  18. Multivalued Mappings and Applications

    Directory of Open Access Journals (Sweden)

    Jingling Zhang

    2012-01-01

    nonexpansive multi-valued mapping and to prove the strong convergence theorems of fixed point for weak relatively nonexpansive multivalued mappings in Banach spaces. The weak relatively nonexpansive multivalued mappings are more generalized than relatively nonexpansive multivalued mappings. In this paper, an example will be given which is a weak relatively nonexpansive multivalued mapping but not a relatively nonexpansive multivalued mapping. In order to get the strong convergence theorems for weak relatively nonexpansive multivalued mappings, a new monotone hybrid iteration algorithm with generalized (metric projection is presented and is used to approximate the fixed point of weak relatively nonexpansive multivalued mappings. In this paper, the notion of multivalued resolvent of maximal monotone operator has been also presented which is a weak relatively nonexpansive multivalued mapping and can be used to find the zero point of maximal monotone operator.

  19. Mapping Mutations on Phylogenies

    DEFF Research Database (Denmark)

    Nielsen, Rasmus

    2005-01-01

    This chapter provides a short review of recent methodologies developed for mapping mutations on phylogenies. Mapping of mutations, or character changes in general, using the maximum parsimony principle has been one of the most powerful tools in phylogenetics, and it has been used in a variety of ...... uncertainty in the mapping. Recently developed probabilistic methods can incorporate statistical uncertainty in the character mappings. In these methods, focus is on a probability distribution of mutational mappings instead of a single estimate of the mutational mapping....

  20. Mapping with Drupal

    CERN Document Server

    Palazzolo, Alan

    2011-01-01

    Build beautiful interactive maps on your Drupal website, and tell engaging visual stories with your data. This concise guide shows you how to create custom geographical maps from top to bottom, using Drupal 7 tools and out-of-the-box modules. You'll learn how mapping works in Drupal, with examples on how to use intuitive interfaces to map local events, businesses, groups, and other custom data. Although building maps with Drupal can be tricky, this book helps you navigate the system's complexities for creating sophisticated maps that match your site design. Get the knowledge and tools you ne

  1. Some Semi - Equivelar Maps

    CERN Document Server

    Upadhyay, Ashish K; Maity, Dipendu

    2011-01-01

    Semi-Equivelar maps are generalizations of Archimedean Solids (as are equivelar maps of the Platonic solids) to the surfaces other than $2-$Sphere. We classify some semi equivelar maps on surface of Euler characteristic -1 and show that none of these are vertex transitive. We establish existence of 12-covered triangulations for this surface. We further construct double cover of these maps to show existence of semi-equivelar maps on the surface of double torus. We also construct several semi-equivelar maps on the surfaces of Euler characteristics -8 and -10 and on non-orientable surface of Euler characteristics -2.

  2. Mapping in the cloud

    CERN Document Server

    Peterson, Michael P

    2014-01-01

    This engaging text provides a solid introduction to mapmaking in the era of cloud computing. It takes students through both the concepts and technology of modern cartography, geographic information systems (GIS), and Web-based mapping. Conceptual chapters delve into the meaning of maps and how they are developed, covering such topics as map layers, GIS tools, mobile mapping, and map animation. Methods chapters take a learn-by-doing approach to help students master application programming interfaces and build other technical skills for creating maps and making them available on the Internet. Th

  3. Physics Overview

    OpenAIRE

    Kuang, Yu-Ping

    1999-01-01

    Recent developments of physics at the TeV energy scale, especially physics related to the electron-positron linear colliders are briefly reviewed. The topics include the present status of the standard model, Higgs physics, supersymmetry, strongly interacting electroweak symmetry breaking mechanism, and top quark physics.

  4. Physical ergonomics

    OpenAIRE

    Looze, M. de; Koningsveld, E.

    2013-01-01

    Physical ergonomics deals with the physical load on the human body when performing activities like work, sports, jobs at home or dealing with products. With regard to the exposure to physical loads and its potential effects on the human body, the presented framework is helpful. In this article we explain more about the backgrounds of physical ergonomics, the risk assessment, the types of physical load: heavy work, repetitive work, and sedentary work.

  5. Discretization and implicit mapping dynamics

    CERN Document Server

    Luo, Albert C J

    2015-01-01

    This unique book presents the discretization of continuous systems and implicit mapping dynamics of periodic motions to chaos in continuous nonlinear systems. The stability and bifurcation theory of fixed points in discrete nonlinear dynamical systems is reviewed, and the explicit and implicit maps of continuous dynamical systems are developed through the single-step and multi-step discretizations. The implicit dynamics of period-m solutions in discrete nonlinear systems are discussed. The book also offers a generalized approach to finding analytical and numerical solutions of stable and unstable periodic flows to chaos in nonlinear systems with/without time-delay. The bifurcation trees of periodic motions to chaos in the Duffing oscillator are shown as a sample problem, while the discrete Fourier series of periodic motions and chaos are also presented. The book offers a valuable resource for university students, professors, researchers and engineers in the fields of applied mathematics, physics, mechanics,...

  6. Active Fire Mapping Program

    Science.gov (United States)

    Active Fire Mapping Program Current Large Incidents (Home) New Large Incidents Fire Detection Maps MODIS Satellite Imagery VIIRS Satellite Imagery Fire Detection GIS Data Fire Data in Google Earth ...

  7. NAIP Status Maps Gallery

    Data.gov (United States)

    Farm Service Agency, Department of Agriculture — NAIP Status Maps Gallery. These maps illustrate what aerial imagery collection is planned, whats been collected, when it is available and how it is available. These...

  8. MapBook

    Data.gov (United States)

    National Aeronautics and Space Administration — Beginning with the systematic mapping of the lunar surface more than three decades ago, this database contains over 1600 maps of the planets and satellites of the...

  9. Recovery Action Mapping Tool

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The Recovery Action Mapping Tool is a web map that allows users to visually interact with and query actions that were developed to recover species listed under the...

  10. Mapping Medicare Disparities Tool

    Data.gov (United States)

    U.S. Department of Health & Human Services — The CMS Office of Minority Health has designed an interactive map, the Mapping Medicare Disparities Tool, to identify areas of disparities between subgroups of...

  11. Letter of Map Revision

    Data.gov (United States)

    Earth Data Analysis Center, University of New Mexico — The National Flood Hazard Layer (NFHL) data incorporates all Digital Flood Insurance Rate Map(DFIRM) databases published by FEMA, and any Letters Of Map Revision...

  12. NGS Survey Control Map

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The NGS Survey Control Map provides a map of the US which allows you to find and display geodetic survey control points stored in the database of the National...

  13. Branched polynomial covering maps

    DEFF Research Database (Denmark)

    Hansen, Vagn Lundsgaard

    2002-01-01

    A Weierstrass polynomial with multiple roots in certain points leads to a branched covering map. With this as the guiding example, we formally define and study the notion of a branched polynomial covering map. We shall prove that many finite covering maps are polynomial outside a discrete branch...... set. Particular studies are made of branched polynomial covering maps arising from Riemann surfaces and from knots in the 3-sphere. (C) 2001 Elsevier Science B.V. All rights reserved....

  14. Diffusion Based Photon Mapping

    DEFF Research Database (Denmark)

    Schjøth, Lars; Fogh Olsen, Ole; Sporring, Jon

    2007-01-01

    . To address this problem we introduce a novel photon mapping algorithm based on nonlinear anisotropic diffusion. Our algorithm adapts according to the structure of the photon map such that smoothing occurs along edges and structures and not across. In this way we preserve the important illumination features......, while eliminating noise. We call our method diffusion based photon mapping....

  15. Reading Angles in Maps

    Science.gov (United States)

    Izard, Véronique; O'Donnell, Evan; Spelke, Elizabeth S.

    2014-01-01

    Preschool children can navigate by simple geometric maps of the environment, but the nature of the geometric relations they use in map reading remains unclear. Here, children were tested specifically on their sensitivity to angle. Forty-eight children (age 47:15-53:30 months) were presented with fragments of geometric maps, in which angle sections…

  16. Quantum Simulations of Physics Problems

    CERN Document Server

    Somma, R D; Knill, E; Gubernatis, J; Somma, Rolando; Ortiz, Gerardo; Knill, Emanuel; Gubernatis, James

    2003-01-01

    If a large Quantum Computer (QC) existed today, what type of physical problems could we efficiently simulate on it that we could not simulate on a classical Turing machine? In this paper we argue that a QC could solve some relevant physical "questions" more efficiently. The existence of one-to-one mappings between different algebras of observables or between different Hilbert spaces allow us to represent and imitate any physical system by any other one (e.g., a bosonic system by a spin-1/2 system). We explain how these mappings can be performed showing quantum networks useful for the efficient evaluation of some physical properties, such as correlation functions and energy spectra.

  17. Quantum simulations of physics problems

    Science.gov (United States)

    Somma, Rolando D.; Ortiz, Gerardo; Knill, Emanuel H.; Gubernatis, James

    2003-08-01

    If a large Quantum Computer (QC) existed today, what type of physical problems could we efficiently simulate on it that we could not simulate on a classical Turing machine? In this paper we argue that a QC could solve some relevant physical "questions" more efficiently. The existence of one-to-one mappings between different algebras of observables or between different Hilbert spaces allow us to represent and imitate any physical system by any other one (e.g., a bosonic system by a spin-1/2 system). We explain how these mappings can be performed showing quantum networks useful for the efficient evaluation of some physical properties, such as correlation functions and energy spectra.

  18. Statistical Physics

    CERN Document Server

    Mandl, Franz

    1988-01-01

    The Manchester Physics Series General Editors: D. J. Sandiford; F. Mandl; A. C. Phillips Department of Physics and Astronomy, University of Manchester Properties of Matter B. H. Flowers and E. Mendoza Optics Second Edition F. G. Smith and J. H. Thomson Statistical Physics Second Edition E. Mandl Electromagnetism Second Edition I. S. Grant and W. R. Phillips Statistics R. J. Barlow Solid State Physics Second Edition J. R. Hook and H. E. Hall Quantum Mechanics F. Mandl Particle Physics Second Edition B. R. Martin and G. Shaw The Physics of Stars Second Edition A. C. Phillips Computing for Scient

  19. Particle physics

    CERN Document Server

    Martin, Brian R

    2017-01-01

    An accessible and carefully structured introduction to Particle Physics, including important coverage of the Higgs Boson and recent progress in neutrino physics. Fourth edition of this successful title in the Manchester Physics series. Includes information on recent key discoveries including : An account of the discovery of exotic hadrons, beyond the simple quark model; Expanded treatments of neutrino physics and CP violation in B-decays; An updated account of ‘physics beyond the standard model’, including the interaction of particle physics with cosmology; Additional problems in all chapters, with solutions to selected problems available on the book’s website; Advanced material appears in optional starred sections.

  20. Algebra and topology for applications to physics

    Science.gov (United States)

    Rozhkov, S. S.

    1987-01-01

    The principal concepts of algebra and topology are examined with emphasis on applications to physics. In particular, attention is given to sets and mapping; topological spaces and continuous mapping; manifolds; and topological groups and Lie groups. The discussion also covers the tangential spaces of the differential manifolds, including Lie algebras, vector fields, and differential forms, properties of differential forms, mapping of tangential spaces, and integration of differential forms.

  1. Mapping chaos in particle revolutions

    International Nuclear Information System (INIS)

    The relatively new technique of frequency map analysis has over the last 10 years turned out to be very effective for the analysis of numerical simulations in physical systems ranging even beyond the solar system to galaxies and back again to particle accelerators, particularly for systems with three or more degrees of freedom. More recently, with an eye towards revealing the dynamics of an actual particle beam, it has been applied for the first time to measured rather than simulated electron trajectories in a storage ring, in this case at the Advanced Light Source (ALS) at the Ernest Orlando Lawrence Berkeley National Laboratory (Berkeley Lab)

  2. The philosophy of physics

    CERN Document Server

    Rickles, Dean

    2016-01-01

    Does the future exist already? What is space? Are time machines physically possible? What is quantum mechanical reality like? Are there many universes? Is there a 'true' geometry of the universe? Why does there appear to be an arrow of time? Do humans play a special role in the world? In this unique introductory book, Dean Rickles guides the reader through these and other core questions that keep philosophers of physics up at night. He discusses the three pillars of modern physics (quantum mechanics, statistical mechanics, and the theories of relativity), in addition to more cutting-edge themes such as econophysics, quantum gravity, quantum computers, and gauge theories. The book's approach is based on the idea that philosophy of physics is a kind of 'interpretation game' in which we try to map physical theories onto our world. But the rules of this game often lead to a multiplicity of possible victors: rarely do we encounter a simple answer. The Philosophy of Physics offers a highly accessible introduction...

  3. Physical activity

    Science.gov (United States)

    ... this page: //medlineplus.gov/ency/article/001941.htm Physical activity To use the sharing features on this page, please enable JavaScript. Physical activity -- which includes an active lifestyle and routine exercise -- ...

  4. OpenStreetMap, the Wikipedia Map

    Directory of Open Access Journals (Sweden)

    Gunther Maier

    2014-12-01

    Full Text Available This paper presents OpenStreetMap and closely related software as a resource for spatial economic research. The paper demonstrates how information can be extracted from OpenStreetMap, how it can be used as a geographical interface in web-based communication, and illustrates the value of the tools by use of a specific application, the WU campus GIS.

  5. Cosmopolitan linkage disequilibrium maps

    Directory of Open Access Journals (Sweden)

    Gibson Jane

    2005-03-01

    Full Text Available Abstract Linkage maps have been invaluable for the positional cloning of many genes involved in severe human diseases. Standard genetic linkage maps have been constructed for this purpose from the Centre d'Etude du Polymorphisme Humain and other panels, and have been widely used. Now that attention has shifted towards identifying genes predisposing to common disorders using linkage disequilibrium (LD and maps of single nucleotide polymorphisms (SNPs, it is of interest to consider a standard LD map which is somewhat analogous to the corresponding map for linkage. We have constructed and evaluated a cosmopolitan LD map by combining samples from a small number of populations using published data from a 10-megabase region on chromosome 20. In support of a pilot study, which examined a number of small genomic regions with a lower density of markers, we have found that a cosmopolitan map, which serves all populations when appropriately scaled, recovers 91 to 95 per cent of the information within population-specific maps. Recombination hot spots appear to have a dominant role in shaping patterns of LD. The success of the cosmopolitan map might be attributed to the co-localisation of hot spots in all populations. Although there must be finer scale differences between populations due to other processes (mutation, drift, selection, the results suggest that a whole-genome standard LD map would indeed be a useful resource for disease gene mapping.

  6. Mapping of multi-floor buildings: A barometric approach

    DEFF Research Database (Denmark)

    Özkil, Ali Gürcan; Fan, Zhun; Xiao, Jizhong;

    2011-01-01

    This paper presents a new method for mapping multi5floor buildings. The method combines laser range sensor for metric mapping and barometric pressure sensor for detecting floor transitions and map segmentation. We exploit the fact that the barometric pressure is a function of the elevation, and it...... varies between different floors. The method is tested with a real robot in a typical indoor environment, and the results show that physically consistent multi5floor representations are achievable....

  7. Aristotle's physics

    CERN Document Server

    Rovelli, Carlo

    2013-01-01

    I show that Aristotelian physics is a correct approximation of Newtonian physics in its appropriate domain, in the same precise sense in which Newton theory is an approximation of Einstein's theory. Aristotelian physics lasted long not because it became dogma, but because it is a very good theory.

  8. Construction of a BAC library and mapping BAC clones to the linkage map of Barramundi, Lates calcarifer

    Directory of Open Access Journals (Sweden)

    Lin Grace

    2008-03-01

    Full Text Available Abstract Background Barramundi (Lates calcarifer is an important farmed marine food fish species. Its first generation linkage map has been applied to map QTL for growth traits. To identify genes located in QTL responsible for specific traits, genomic large insert libraries are of crucial importance. We reported herein a bacterial artificial chromosome (BAC library and the mapping of BAC clones to the linkage map. Results This BAC library consisted of 49,152 clones with an average insert size of 98 kb, representing 6.9-fold haploid genome coverage. Screening the library with 24 microsatellites and 15 ESTs/genes demonstrated that the library had good genome coverage. In addition, 62 novel microsatellites each isolated from 62 BAC clones were mapped onto the first generation linkage map. A total of 86 BAC clones were anchored on the linkage map with at least one BAC clone on each linkage group. Conclusion We have constructed the first BAC library for L. calcarifer and mapped 86 BAC clones to the first generation linkage map. This BAC library and the improved linkage map with 302 DNA markers not only supply an indispensable tool to the integration of physical and linkage maps, the fine mapping of QTL and map based cloning genes located in QTL of commercial importance, but also contribute to comparative genomic studies and eventually whole genome sequencing.

  9. Genome Mapping in Plant Comparative Genomics.

    Science.gov (United States)

    Chaney, Lindsay; Sharp, Aaron R; Evans, Carrie R; Udall, Joshua A

    2016-09-01

    Genome mapping produces fingerprints of DNA sequences to construct a physical map of the whole genome. It provides contiguous, long-range information that complements and, in some cases, replaces sequencing data. Recent advances in genome-mapping technology will better allow researchers to detect large (>1kbp) structural variations between plant genomes. Some molecular and informatics complications need to be overcome for this novel technology to achieve its full utility. This technology will be useful for understanding phenotype responses due to DNA rearrangements and will yield insights into genome evolution, particularly in polyploids. In this review, we outline recent advances in genome-mapping technology, including the processes required for data collection and analysis, and applications in plant comparative genomics.

  10. Using Mind Mapping to Improve High School Students' Physics Problem Solving Ability%利用思维导图提高高中生物理问题解决能力

    Institute of Scientific and Technical Information of China (English)

    景海霞

    2015-01-01

    随着当今社会的发展,我们的教育更加注重培养和提高学生们的能力,而其核心正是培养学生思维的全面性。为迎合新课程改革的需要,在这一背景下,思维导图在脑科学、教育学、信息科技等各学科拥有了新成果后,在教育学中的应用价值日益凸显。在思维导图的制作过程中,可以促进学生思维的发散与集中,进而更加有效地改变学生的认知和思考方式,以便于能够使学生更加主动地去学习和反思,甚至是合作学习。更能够让学生们有效地归纳整理知识,培养自主学习的能力,提高学生们发现问题、分析问题并解决问题的思维品质,以至于让学生们受益终身。%With the development of today's society, we pay more attention to training and education to improve students' ability, and its core is the comprehensive culture of students' thinking. To meet the needs of the new curriculum reform, in this context, mind map in brain science, education, information technology and other disciplines have new achievements ap-plication in education an increasingly significant depression. In the production process of mind mapping, you can promote divergent thinking and focused on the student, and thus more effective change students' cognitive and ways of thinking in or-der to enable students to learn more initiative and reflection, even cooperative learning. Allow students more effectively col-late knowledge, learning to self-learning ability to improve students identify problems, analyze problems and solve the prob-lem of the quality of thinking that allows students to benefit from life.

  11. Understanding physics

    CERN Document Server

    Mansfield, Michael

    2011-01-01

    Understanding Physics - Second edition is a comprehensive, yet compact, introductory physics textbook aimed at physics undergraduates and also at engineers and other scientists taking a general physics course. Written with today's students in mind, this text covers the core material required by an introductory course in a clear and refreshing way. A second colour is used throughout to enhance learning and understanding. Each topic is introduced from first principles so that the text is suitable for students without a prior background in physics. At the same time the book is designed to enable

  12. Physical Systems

    CERN Document Server

    Belkind, Ori

    2012-01-01

    Based on the concept of a physical system, this book offers a new philosophical interpretation of classical mechanics and the Special Theory of Relativity. According to Belkind's view the role of physical theory is to describe the motions of the parts of a physical system in relation to the motions of the whole. This approach provides a new perspective into the foundations of physical theory, where motions of parts and wholes of physical systems are taken to be fundamental, prior to spacetime, material properties and laws of motion. He defends this claim with a constructive project, deriving b

  13. Game physics

    CERN Document Server

    Eberly, David H

    2010-01-01

    ""Game Physics, 2nd Edition"" provides clear descriptions of the mathematics and algorithms needed to create a powerful physics engine - while providing a solid reference for all of the math you will encounter anywhere in game development: quaternions, linear algebra, and calculus. Implementing physical simulations for real-time games is a complex task that requires a solid understanding of a wide range of concepts from the fields of mathematics and physics. Previously, the relevant information could only be gleaned through obscure research papers. Thanks to ""Game Physics"", all this informa

  14. Particle Physics

    CERN Document Server

    Martin, B R

    2008-01-01

    An essential introduction to particle physics, with coverage ranging from the basics through to the very latest developments, in an accessible and carefully structured text. Particle Physics: Third Edition is a revision of a highly regarded introduction to particle physics. In its two previous editions this book has proved to be an accessible and balanced introduction to modern particle physics, suitable for those students needed a more comprehensive introduction to the subject than provided by the 'compendium' style physics books. In the Third Edition the standard mod

  15. $2^n-$rational maps

    OpenAIRE

    Kassotakis, Pavlos; Nieszporski, Maciej; Damianou, Pantelis

    2015-01-01

    We present a natural extension of the notion of nondegenerate rational maps (quadrirational maps) to arbitrary dimensions. We refer to these maps as $2^n-$rational maps. In this note we construct a rich family of $2^n-$rational maps. These maps by construction are involutions and highly symmetric in the sense that the maps and their companion maps have the same functional form.

  16. A First Glimpse of Wild Lupin Karyotype Variation As Revealed by Comparative Cytogenetic Mapping.

    Science.gov (United States)

    Susek, Karolina; Bielski, Wojciech K; Hasterok, Robert; Naganowska, Barbara; Wolko, Bogdan

    2016-01-01

    Insight into plant genomes at the cytomolecular level provides useful information about their karyotype structure, enabling inferences about taxonomic relationships and evolutionary origins. The Old World lupins (OWL) demonstrate a high level of genomic diversification involving variation in chromosome numbers (2n = 32-52), basic chromosome numbers (x = 5-7, 9, 13) and in nuclear genome size (2C DNA = 0.97-2.68 pg). Lupins comprise both crop and wild species and provide an intriguing system to study karyotype evolution. In order to investigate lupin chromosome structure, heterologous FISH was used. Sixteen BACs that had been generated as chromosome markers for the reference species, Lupinus angustifolius, were used to identify chromosomes in the wild species and explore karyotype variation. While all "single-locus" in L. angustifolius, in the wild lupins these clones proved to be "single-locus," "single-locus" with additional signals, "repetitive" or had no detectable BAC-FISH signal. The diverse distribution of the clones in the targeted genomes suggests a complex evolution history, which possibly involved multiple chromosomal changes such as fusions/fissions and repetitive sequence amplification. Twelve BACs were sequenced and we found numerous transposable elements including DNA transposons as well as LTR and non-LTR retrotransposons with varying quantity and composition among the different lupin species. However, at this preliminary stage, no correlation was observed between the pattern of BAC-FISH signals and the repeat content in particular BACs. Here, we describe the first BAC-based chromosome-specific markers for the wild species: L. cosentinii, L. cryptanthus, L. pilosus, L. micranthus and one New World lupin, L. multiflorus. These BACs could constitute the basis for an assignment of the chromosomal and genetic maps of other lupins, e.g., L. albus and L. luteus. Moreover, we identified karyotype variation that helps illustrate the relationships between the

  17. Map Projection Transitions

    Directory of Open Access Journals (Sweden)

    Nedjeljko Frančula

    2013-06-01

    Full Text Available Map Projection Transitions is a very successful web application about map projections. The web page (http://www.jasondavies.com/maps/transition pre­sents a world map with graticule and country borders in the oblique Aitoff projection, with the South Pole. The map is not static, but animated. The South Pole moves toward the bottom and Earth rotates around its poles. The animation lasts five seconds, after which the projection changes and movement continues for five seconds, after which the projection changes again. Names of projections appear in a separate window. There are a total of 56 projections. The South Pole eventually becomes invisible and the North Pole appears at the top. Various parts of Earth appear in the center of the map by rotating around the poles.

  18. Open Land Use Map

    Directory of Open Access Journals (Sweden)

    T. Mildorf

    2014-12-01

    Full Text Available Open Land Use Map is an initiative that has been started by the Plan4business project and that will be extended as part of the SDI4Apps project in the future. This service aims to create an improved worldwide land use map. The initial map will be prepared using the CORINE Land Cover, Global Cover dataset and Open Street Map. Contributors, mainly volunteers, will able to change the geometry and assign up-to-date land use according to the HILUCS specification. For certain regions more detailed datasets, if available, will be used as an update of the Open Land Use Map. The product is treated as Open Data and users will be able to download the data in a specified format and for a selected area. The paper introduces the technical and business aspects of Open Land Use Map app including the integration and harmonisation tools, sustainability plan and apps that accompany the entire platform.

  19. The Brazilian status on ADS R and D: Preliminary road map to a program on accelerator utilization on basic and applied nuclear physics, products and services and to drive an experimental neutron source sub critical facility

    International Nuclear Information System (INIS)

    Brazil, still a developing country, has an Industrial Nuclear Program, that although small has already achieved a good standard: two NPPs in operation, i.e., ANGRA I and II with 2 GW installed electric capacity are generating approximately 2% of the total installed electricity, a third unit under construction, a fuel cycle industry, INB, with the capability to provide fuel elements for the NPPs. The Brazilian Navy pursues a nuclear program for nuclear propulsion which includes all the front end of the fuel cycle, including the enrichment by ultracentrifuge that is being transferred also to the industrial sector (INB). Research and development is conducted by the various Research Institutes of the Brazilian Nuclear Energy Commission (CNEN): IPEN, CDTN, and IEN which have appropriate technical capability and facilities (research reactors and accelerators) to support the industrial nuclear program, provide products and services for the Brazilian society (e.g., radioisotopes), as well as to develop new technologies. It is fair to say, however, that the Brazilian research institutions do need some new challenges, mainly to motivate and to stimulate a new generation of young engineers and scientists to pursue careers in nuclear energy R and D. The Brazilian Nuclear Physics research, being pursued mainly by the Universities, has an outstanding standard. This is documented by the number of publications in international journals, scientific citations, the number and quality of scientists, and by its capability to form human resources (Ph.D. students). However, it is felt that this scientific potential, a few exceptions apart, still needs to transfer the benefits of the scientific knowledge to the Brazilian society. These boundary conditions call for a R and D program which identifies synergies, society needs, is in agreement with the international developments in science and technology, meets sustainability criteria, matches the Brazilian reality, provides an umbrella for

  20. Heat Capacity Mapping Mission

    Science.gov (United States)

    Nilsson, C. S.; Andrews, J. C.; Scully-Power, P.; Ball, S.; Speechley, G.; Latham, A. R. (Principal Investigator)

    1980-01-01

    The Tasman Front was delineated by airborne expendable bathythermograph survey; and an Heat Capacity Mapping Mission (HCMM) IR image on the same day shows the same principal features as determined from ground-truth. It is clear that digital enhancement of HCMM images is necessary to map ocean surface temperatures and when done, the Tasman Front and other oceanographic features can be mapped by this method, even through considerable scattered cloud cover.

  1. Mind mapping management

    OpenAIRE

    Pugalendhi, Subburethina Bharathi; Nakkeeran, Senthil kumar

    2011-01-01

    A mind map is a diagram used to represent words, ideas, tasks, or other items linked to and arranged around a central key word or idea. Mind maps are used to generate, visualize, structure, and classify ideas, and as an aid to studying and organizing information, solving problems, making decisions, and writing. The fundamentals of mind map are arranged naturally according to the importance of the concepts, and are classified into groupings, branches, or areas, with the goal of representing se...

  2. Diametrically Contractive Multivalued Mappings

    Directory of Open Access Journals (Sweden)

    S. Dhompongsa

    2007-06-01

    Full Text Available Diametrically contractive mappings on a complete metric space are introduced by V. I. Istratescu. We extend and generalize this idea to multivalued mappings. An easy example shows that our fixed point theorem is more applicable than a former one obtained by H. K. Xu. A convergence theorem of Picard iteratives is also provided for multivalued mappings on hyperconvex spaces, thereby extending a Proinov's result.

  3. Classification of Lipschitz mappings

    CERN Document Server

    Piasecki, Lukasz

    2013-01-01

    The Lipschitz Condition Nonlinear spectral radius Uniformly lipschitzian mappings Basic Facts on Banach Spaces Convexity The operator norm Dual spaces, reexivity, the weak, and weak* topologiesMean Lipschitz Condition Nonexpansive and mean nonexpansive mappings in Banach spaces General case On the Lipschitz Constants for Iterates of Mean Lipschitzian Mappings A bound for Lipschitz constants of iterates A bound for the constant k∞(T)Moving averages in Bana

  4. Multi-moment maps

    DEFF Research Database (Denmark)

    Swann, Andrew Francis; Madsen, Thomas Bruun

    2012-01-01

    We introduce a notion of moment map adapted to actions of Lie groups that preserve a closed three-form. We show existence of our multi-moment maps in many circumstances, including mild topological assumptions on the underlying manifold. Such maps are also shown to exist for all groups whose secon......-torus symmetry in terms of tri-symplectic geometry of four-manifolds. (C) 2012 Elsevier Inc. All rights reserved....

  5. Similarity transformations of MAPs

    Directory of Open Access Journals (Sweden)

    Andersen Allan T.

    1999-01-01

    Full Text Available We introduce the notion of similar Markovian Arrival Processes (MAPs and show that the event stationary point processes related to two similar MAPs are stochastically equivalent. This holds true for the time stationary point processes too. We show that several well known stochastical equivalences as e.g. that between the H 2 renewal process and the Interrupted Poisson Process (IPP can be expressed by the similarity transformations of MAPs. In the appendix the valid region of similarity transformations for two-state MAPs is characterized.

  6. Obesity Prevalence Maps

    Science.gov (United States)

    ... Breastfeeding Micronutrient Malnutrition State and Local Programs Adult Obesity Prevalence Maps Recommend on Facebook Tweet Share Compartir Obesity Prevalence in 2015 Varies Across States and Territories ...

  7. Vegetation Fuel Mapping

    Directory of Open Access Journals (Sweden)

    A. V. Volokitina

    2014-12-01

    Full Text Available All vegetation sites as objects of burning are structural complexes of various fuels. Especially complex are forest biogeoceonoses. For practical use, pyrological characteristics of vegetation are reflected on plans and maps showing both general one-sided estimations with site descriptions (for example, their fire hazard and detailed multi-sided characteristics of all compounds in the vegetation fuel complexes. The latter become basic maps for obtaining various pyrological estimations and are called vegetation fuel maps. Vegetation fuel (VF mapping can be made using two methodological approaches: first, by distinguishing pyrological vegetation categories as standard complexes; second, by individually characterizing each vegetation site in terms of VF. Obviously, the standard VF characteristic of sites can be only approximate and rough, since the possible number of studied site categories is limited. For large-scale mapping, the detailed individual characteristic of vegetation sites in terms of VF is more preferable and precise but more expensive. Therefore, historically, the first approach to VF mapping got its development, i. e. distinguishing and mapping of certain vegetation categories with standard characteristics. Foreign and Russian methodical approaches to vegetation fuel (VF classification and mapping are considered. Examples of VF mapping at different scales and guidelines for their use are given.

  8. Ultrasonic physics

    CERN Document Server

    Richardson, E G

    1962-01-01

    Ultrasonic Physics, Second Edition, provides an introduction to the fundamental principles of ultrasonic physics. The book opens with a discussion of the sources of ultrasound. This is followed by separate chapters on the properties and detection of ultrasonic radiation; measurement of propagation constants, i.e., the velocity and absorption, of ultrasound; ultrasound propagation in gases, liquids, and solids; and ultrasound propagation in aerosols, suspensions, and emulsions. The final chapter covers miscellaneous physical and physico-chemical actions, including dispersion and coagulation of

  9. Molecular physics

    CERN Document Server

    Williams, Dudley

    2013-01-01

    Methods of Experimental Physics, Volume 3: Molecular Physics focuses on molecular theory, spectroscopy, resonance, molecular beams, and electric and thermodynamic properties. The manuscript first considers the origins of molecular theory, molecular physics, and molecular spectroscopy, as well as microwave spectroscopy, electronic spectra, and Raman effect. The text then ponders on diffraction methods of molecular structure determination and resonance studies. Topics include techniques of electron, neutron, and x-ray diffraction and nuclear magnetic, nuclear quadropole, and electron spin reson

  10. University physics

    CERN Document Server

    Arfken, George

    1984-01-01

    University Physics provides an authoritative treatment of physics. This book discusses the linear motion with constant acceleration; addition and subtraction of vectors; uniform circular motion and simple harmonic motion; and electrostatic energy of a charged capacitor. The behavior of materials in a non-uniform magnetic field; application of Kirchhoff's junction rule; Lorentz transformations; and Bernoulli's equation are also deliberated. This text likewise covers the speed of electromagnetic waves; origins of quantum physics; neutron activation analysis; and interference of light. This publi

  11. Neutrino physics

    Energy Technology Data Exchange (ETDEWEB)

    Harris, Deborah A.; /Fermilab

    2008-09-01

    The field of neutrino physics has expanded greatly in recent years with the discovery that neutrinos change flavor and therefore have mass. Although there are many neutrino physics results since the last DIS workshop, these proceedings concentrate on recent neutrino physics results that either add to or depend on the understanding of Deep Inelastic Scattering. They also describe the short and longer term future of neutrino DIS experiments.

  12. Physical composition

    Science.gov (United States)

    Healey, Richard

    2013-02-01

    Atomistic metaphysics motivated an explanatory strategy which science has pursued with great success since the scientific revolution. By decomposing matter into its atomic and subatomic parts physics gave us powerful explanations and accurate predictions as well as providing a unifying framework for the rest of science. The success of the decompositional strategy has encouraged a widespread conviction that the physical world forms a compositional hierarchy that physics and other sciences are progressively articulating. But this conviction does not stand up to a closer examination of how physics has treated composition, as a variety of case studies will show.

  13. Action physics

    Science.gov (United States)

    McGinness, Lachlan P.; Savage, C. M.

    2016-09-01

    More than a decade ago, Edwin Taylor issued a "call to action" that presented the case for basing introductory university mechanics teaching around the principle of stationary action [E. F. Taylor, Am. J. Phys. 71, 423-425 (2003)]. We report on our response to that call in the form of an investigation of the teaching and learning of the stationary action formulation of physics in a first-year university course. Our action physics instruction proceeded from the many-paths approach to quantum physics to ray optics, classical mechanics, and relativity. Despite the challenges presented by action physics, students reported it to be accessible, interesting, motivational, and valuable.

  14. Computational physics

    CERN Document Server

    Newman, Mark

    2013-01-01

    A complete introduction to the field of computational physics, with examples and exercises in the Python programming language. Computers play a central role in virtually every major physics discovery today, from astrophysics and particle physics to biophysics and condensed matter. This book explains the fundamentals of computational physics and describes in simple terms the techniques that every physicist should know, such as finite difference methods, numerical quadrature, and the fast Fourier transform. The book offers a complete introduction to the topic at the undergraduate level, and is also suitable for the advanced student or researcher who wants to learn the foundational elements of this important field.

  15. Physical Activity

    DEFF Research Database (Denmark)

    Andersen, Lars Bo; Anderssen, Sigmund Alfred; Wisløff, Ulrik;

    2014-01-01

    Andersen LB, Anderssen SA, Wisløff U, Hellénius M-L, Fogelholm M, Ekelund U. (Expert Group) Nordic Nutrition Recommendations 2012. Integrating nutrition and physical activity. Chapter: Physical Activity p. 195-217.Nordic Counsil of Ministers.......Andersen LB, Anderssen SA, Wisløff U, Hellénius M-L, Fogelholm M, Ekelund U. (Expert Group) Nordic Nutrition Recommendations 2012. Integrating nutrition and physical activity. Chapter: Physical Activity p. 195-217.Nordic Counsil of Ministers....

  16. Video Game Genre Affordances for Physics Education

    Science.gov (United States)

    Anagnostou, Kostas; Pappa, Anastasia

    2011-01-01

    In this work, the authors analyze the video game genres' features and investigate potential mappings to specific didactic approaches in the context of Physics education. To guide the analysis, the authors briefly review the main didactic approaches for Physics and identify qualities that can be projected into game features. Based on the…

  17. Molecular mapping of chromosomes 17 and X

    Energy Technology Data Exchange (ETDEWEB)

    Barker, D.F.

    1991-01-15

    Progress toward the construction of high density genetic maps of chromosomes 17 and X has been made by isolating and characterizing a relatively large set of polymorphic probes for each chromosome and using these probes to construct genetic maps. We have mapped the same polymorphic probes against a series of chromosome breakpoints on X and 17. The probes could be assigned to over 30 physical intervals on the X chromosome and 7 intervals on 17. In many cases, this process resulted in improved characterization of the relative locations of the breakpoints with respect to each other and the definition of new physical intervals. The strategy for isolation of the polymorphic clones utilized chromosome specific libraries of 1--15 kb segments from each of the two chromosomes. From these libraries, clones were screened for those detecting restriction fragment length polymorphisms. The markers were further characterized, the chromosomal assignments confirmed and in most cases segments of the original probes were subcloned into plasmids to produce probes with improved signal to noise ratios for use in the genetic marker studies. The linkage studies utilize the CEPH reference families and other well-characterized families in our collection which have been used for genetic disease linkage work. Preliminary maps and maps of portions of specific regions of 17 and X are provided. We have nearly completed a map of the 1 megabase Mycoplasma arthritidis genome by applying these techniques to a lambda phage library of its genome. We have found bit mapping to be an efficient means to organize a contiguous set of overlapping clones from a larger genome.

  18. Mapping geogenic radon potential by regression kriging.

    Science.gov (United States)

    Pásztor, László; Szabó, Katalin Zsuzsanna; Szatmári, Gábor; Laborczi, Annamária; Horváth, Ákos

    2016-02-15

    Radon ((222)Rn) gas is produced in the radioactive decay chain of uranium ((238)U) which is an element that is naturally present in soils. Radon is transported mainly by diffusion and convection mechanisms through the soil depending mainly on the physical and meteorological parameters of the soil and can enter and accumulate in buildings. Health risks originating from indoor radon concentration can be attributed to natural factors and is characterized by geogenic radon potential (GRP). Identification of areas with high health risks require spatial modeling, that is, mapping of radon risk. In addition to geology and meteorology, physical soil properties play a significant role in the determination of GRP. In order to compile a reliable GRP map for a model area in Central-Hungary, spatial auxiliary information representing GRP forming environmental factors were taken into account to support the spatial inference of the locally measured GRP values. Since the number of measured sites was limited, efficient spatial prediction methodologies were searched for to construct a reliable map for a larger area. Regression kriging (RK) was applied for the interpolation using spatially exhaustive auxiliary data on soil, geology, topography, land use and climate. RK divides the spatial inference into two parts. Firstly, the deterministic component of the target variable is determined by a regression model. The residuals of the multiple linear regression analysis represent the spatially varying but dependent stochastic component, which are interpolated by kriging. The final map is the sum of the two component predictions. Overall accuracy of the map was tested by Leave-One-Out Cross-Validation. Furthermore the spatial reliability of the resultant map is also estimated by the calculation of the 90% prediction interval of the local prediction values. The applicability of the applied method as well as that of the map is discussed briefly.

  19. Comparative physical mapping of rice BAC clones linked to resistance genes Glh,Bph-3 and xa-5 in Oryza sativa L.and O.granulata Nees et Am.ex Watt.

    Institute of Scientific and Technical Information of China (English)

    XIONG Zhiyong; TAN Guangxuan; YOU Aiqing; HE Guangyuan; SHE Chaowen; LI Lijia; SONG Yunchun

    2004-01-01

    Oryza granulata Nees et Arn. ex Watt. is one of the three wild relatives of rice, which are the most valuable for study and utilization in China. In this study, the homology and physical locations of three rice resistance genes, Glh,Bph-3 and xa-5 are comparatively analyzed between O. sativa and O. granulata by Southern blotting and fluorescence in situ hybridization (FISH). The results of Southern blotting indicate that there exist homologous sequences of the tested RFLP markers in O. granulata. By using three bacterial artificial chromosome (BAC) clones scanned by the tested RFLP as probes, FISH signals are detected on both mitotic and pachytene chromosomes in O. sativa and O. granulata.Dual-color FISH demonstrates that two of the three BAC clones (14E16 and 38J9) are located on the short arm of the same chromosome pair in O. granulata. Additionally, colinearity is shown for the two clones between O. sativa and O.granulata. Another BAC clone 44B4 is located on the end of the short arm of other chromosome pair in these two species.Although the phylogenetic relationship between O. sativa and O. granulata is the most distinct in Oryza and these two species have evidently different biological features and ecological habits, the relative lengths and arm ratios of the detected chromosomes and the relative positions of the tested clone signals on chromosomes in O. granulata are quite similar to those in O. sativa.

  20. CMOS Monolithic Active Pixel Sensors (MAPS) for future vertex detectors

    International Nuclear Information System (INIS)

    This paper reviews the development of CMOS Monolithic Active Pixel Sensors (MAPS) for future vertex detectors. MAPS are developed in a standard CMOS technology. In the imaging field, where the technology found its first applications, they are also known as CMOS Image Sensors. The use of MAPS as a detector for particle physics was first proposed at the end of 1999. Since then, their good performance in terms of spatial resolution, efficiency, radiation hardness have been demonstrated and work is now well under way to deliver the first MAPS-based vertex detectors

  1. Rotation Intervals for Quasi-Periodically Forced Circle Maps

    OpenAIRE

    Silvia Pina-Romero

    2012-01-01

    This work investigates some aspects of the dynamics of non-invertible quasi-periodic circle maps, from the point of view of rotation numbers and their structure in parameter space.Circle maps and quasi-periodically forced circle maps have been widely used asa model for a broad range of physical phenomena. From the mathematical point of view they have also received considerable attention because of the many interesting features they exhibit.The system used is given by the maps: x_n = [ x_n-1 +...

  2. Optimization using surrogate models - by the space mapping technique

    DEFF Research Database (Denmark)

    Søndergaard, Jacob

    2003-01-01

    conditions are satisfied. So hybrid methods, combining the space mapping technique with classical optimization methods, should be used if convergence to high accuracy is wanted. Approximation abilities of the space mapping surrogate are compared with those of a Taylor model of the expensive model. The space...... of the algorithms are hybrid algorithms. Convergence of a class of hybrid space mapping algorithms is proved.......Surrogate modelling and optimization techniques are intended for engineering design in the case where an expensive physical model is involved. This thesis provides a literature overview of the field of surrogate modelling and optimization. The space mapping technique is one such method...

  3. CMOS Monolithic Active Pixel Sensors (MAPS) for future vertex detectors

    CERN Document Server

    Turchetta, R

    2006-01-01

    This paper reviews the development of CMOS Monolithic Active Pixel Sensors (MAPS) for future vertex detectors. MAPS are developed in a standard CMOS technology. In the imaging field, where the technology found its first applications, they are also known as CMOS Image Sensors. The use of MAPS as a detector for particle physics was first proposed at the end of 1999. Since then, their good performance in terms of spatial resolution, efficiency, radiation hardness have been demonstrated and work is now well under way to deliver the first MAPS-based vertex detectors.

  4. Lyman Alpha Mapping Project (LAMP) Brightness Maps

    Science.gov (United States)

    Retherford, Kurt D.; Gladstone, G.; Stern, S.; Egan, A. F.; Miles, P. F.; Parker, J. W.; Greathouse, T. K.; Davis, M. W.; Slater, D. C.; Kaufmann, D. E.; Versteeg, M. H.; Feldman, P. D.; Hurley, D. M.; Pryor, W. R.; Hendrix, A. R.

    2010-10-01

    The Lyman Alpha Mapping Project (LAMP) is an ultraviolet (UV) spectrograph on the Lunar Reconnaissance Orbiter (LRO) that is designed to map the lunar albedo at far-UV wavelengths. LAMP primarily measures interplanetary Hydrogen Lyman-alpha sky-glow and far-UV starlight reflected from the night-side lunar surface, including permanently shadowed regions (PSRs) near the poles. Dayside observations are also obtained. Brightness maps sorted by wavelength (including the Lyman-alpha wavelength of 121.6 nm) are reported for the polar regions, with a few regions of interest reported in more detail. LAMP's spectral range of 58 nm to 196 nm includes a water ice spectral feature near 160 nm, which provides a diagnostic tool for detecting water on the lunar surface that is complementary to recent discoveries using infrared and radio frequency techniques. Progress towards producing far-UV albedo maps and searching for water ice signatures will be reported. We'll discuss how LAMP data may address questions regarding how water is formed on the moon, transported through the lunar atmosphere, and deposited in the PSRs.

  5. On circle map coupled map lattice

    CERN Document Server

    Ahmed, E

    2002-01-01

    Circle map in one and two dimensions is studied. Both its stability, synchronization using bounded control and persistence is discussed. This work is expected to be applicable in ecology where spatial effects are known to be important. Also it will be relevant to systems where delay effects are not negligible.

  6. Imagined Physics

    DEFF Research Database (Denmark)

    Merritt, Timothy Robert; Nørgaard, M.; Laursen, C.;

    2015-01-01

    to this book focuses on the human responses to objects that change shape in response to input from users, environment, or other circumstances. In this chapter we discuss the term "imagined physics", meaning how actuated devices are in one sense tied to their physical form, yet through the use of actuators...

  7. Climate Physics

    Science.gov (United States)

    Space, William

    2007-01-01

    Numerous connections exist between climate science and topics normally covered in physics and physical science courses. For instance, lessons on heat and light can be used to introduce basic climate science, and the study of electric circuits provides a context for studying the relationship between electricity consumption and carbon pollution. To…

  8. Acoustic mapping velocimetry

    Science.gov (United States)

    Muste, M.; Baranya, S.; Tsubaki, R.; Kim, D.; Ho, H.; Tsai, H.; Law, D.

    2016-05-01

    Knowledge of sediment dynamics in rivers is of great importance for various practical purposes. Despite its high relevance in riverine environment processes, the monitoring of sediment rates remains a major and challenging task for both suspended and bed load estimation. While the measurement of suspended load is currently an active area of testing with nonintrusive technologies (optical and acoustic), bed load measurement does not mark a similar progress. This paper describes an innovative combination of measurement techniques and analysis protocols that establishes the proof-of-concept for a promising technique, labeled herein Acoustic Mapping Velocimetry (AMV). The technique estimates bed load rates in rivers developing bed forms using a nonintrusive measurements approach. The raw information for AMV is collected with acoustic multibeam technology that in turn provides maps of the bathymetry over longitudinal swaths. As long as the acoustic maps can be acquired relatively quickly and the repetition rate for the mapping is commensurate with the movement of the bed forms, successive acoustic maps capture the progression of the bed form movement. Two-dimensional velocity maps associated with the bed form migration are obtained by implementing algorithms typically used in particle image velocimetry to acoustic maps converted in gray-level images. Furthermore, use of the obtained acoustic and velocity maps in conjunction with analytical formulations (e.g., Exner equation) enables estimation of multidirectional bed load rates over the whole imaged area. This paper presents a validation study of the AMV technique using a set of laboratory experiments.

  9. Map-A-Planet

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — The Map-A-Planet website allows users to create and download custom image maps of planets and satellites from a variety of missions in an easy to use web interface

  10. Multivariate Nonnegative Quadratic Mappings

    NARCIS (Netherlands)

    Luo, Z-Q; Sturm, J.F.; Zhang, S.

    2003-01-01

    In this paper we study several issues related to the characterization of speci c classes of multivariate quadratic mappings that are nonnegative over a given domain, with nonnegativity de ned by a pre-speci ed conic order.In particular, we consider the set (cone) of nonnegative quadratic mappings de

  11. Android Mapping Application

    Directory of Open Access Journals (Sweden)

    Abdalwhab Bakheet

    2014-04-01

    Full Text Available Location-aware and mapping applications have gone f rom a desirable feature to an essential part of any smart phone. Whether a user is checking into a social network, looking for a pharmacy in the middle of the night, or located in somewhere and needs help, the key is always the same: location. In this project, an Android mapping application is developed. The application is able to display the map of the whole world while online or, display a pre-downloaded map while offline, track the user’s location, display a compass to determine north, send the user’s location to others in case of emergency using SMS, receive and interpret received location from the message, display it on the map, and notify the user by the reception of the location. The application was developed using agile methodol ogy. It, met its objectives and successfully passed 91% of the final system test, recording that some limitations were discovered, the application needs further testing and can be implem ented for particular company or university using their own maps or editing the maps in OSM (op en street maps.

  12. Near real-time skin deformation mapping

    Science.gov (United States)

    Kacenjar, Steve; Chen, Suzie; Jafri, Madiha; Wall, Brian; Pedersen, Richard; Bezozo, Richard

    2013-02-01

    A novel in vivo approach is described that provides large area mapping of the mechanical properties of the skin in human patients. Such information is important in the understanding of skin health, cosmetic surgery[1], aging, and impacts of sun exposure. Currently, several methods have been developed to estimate the local biomechanical properties of the skin, including the use of a physical biopsy of local areas of the skin (in vitro methods) [2, 3, and 4], and also the use of non-invasive methods (in vivo) [5, 6, and 7]. All such methods examine localized areas of the skin. Our approach examines the local elastic properties via the generation of field displacement maps of the skin created using time-sequence imaging [9] with 2D digital imaging correlation (DIC) [10]. In this approach, large areas of the skin are reviewed rapidly, and skin displacement maps are generated showing the contour maps of skin deformation. These maps are then used to precisely register skin images for purposes of diagnostic comparison. This paper reports on our mapping and registration approach, and demonstrates its ability to accurately measure the skin deformation through a described nulling interpolation process. The result of local translational DIC alignment is compared using this interpolation process. The effectiveness of the approach is reported in terms of residual RMS, image entropy measures, and differential segmented regional errors.

  13. Quasipolynomial generalization of Lotka-Volterra mappings

    Energy Technology Data Exchange (ETDEWEB)

    Hernandez-Bermejo, Benito; Brenig, Leon [Service de Physique Theorique et Mathematique, Universite Libre de Bruxelles, Campus Plaine - CP 231, Brussels (Belgium)]. E-mails: bhernand@ulb.ac.be; lbrenig@ulb.ac.be

    2002-07-05

    In recent years, it has been shown that Lotka-Volterra mappings constitute a valuable tool from both the theoretical and the applied points of view, with developments in very diverse fields such as physics, population dynamics, chemistry and economy. The purpose of this work is to demonstrate that many of the most important ideas and algebraic methods that constitute the basis of the quasipolynomial formalism (originally conceived for the analysis of ordinary differential equations) can be extended into the mapping domain. The extension of the formalism into the discrete-time context is remarkable as far as the quasipolynomial methodology had never been shown to be applicable beyond the differential case. It will be demonstrated that Lotka-Volterra mappings play a central role in the quasipolynomial formalism for the discrete-time case. Moreover, the extension of the formalism into the discrete-time domain allows a significant generalization of Lotka-Volterra mappings as well as a whole transfer of algebraic methods into the discrete-time context. The result is a novel and more general conceptual framework for the understanding of Lotka-Volterra mappings as well as a new range of possibilities that become open not only for the theoretical analysis of Lotka-Volterra mappings and their generalizations, but also for the development of new applications. (author)

  14. Evolution of a Laser Hybrid Welding Map

    Science.gov (United States)

    Kaplan, Alexander F. H.; Frostevarg, Jan; Ilar, Torbjörn; Bang, Hee-Seon; Bang, Han-Sur

    Laser arc hybrid welding combines the advantages but also the complex physical mechanisms of gas metal arc welding and laser keyhole welding. From manifold mainly experimental but also theoretical research results a map with versatile functions was initiated for the first time. The purpose is to survey the overall context and to facilitate navigation to the various phenomena that are shown through case studies accompanied by theoretical explanations and guidelines for optimization. Though not complete, the map enables systematic and graphical navigation to relevant publications. Based on a fundamental structure of the map, which was decided early, it is inherently extendable in the future by adding existing and new knowledge, also from other research groups, enabling evolution. The fundament of the map structure comprises gouge thickness, joint type and metal grade, in coherence with product and weld designers' starting points. The next hierarchy level of the map offers options in the joint type as well as in hybrid welding techniques. The latter contains techniques like double-sided welding, pulse shaping management of the arc or laser, CMT arcs, tandem arcs, or remelting of undercuts. In addition to laser-arc hybrid welding, other hybrid laser techniques like multilayer hot-wire laser welding of narrow gaps or hybrid laser friction stir welding can be taken into account. At the other end of the hierarchy, the map offers via a database-like archive electronic navigation to research results like weld macrographs, high speed imaging or numerical simulation results of the welding process.

  15. Understanding physics

    CERN Document Server

    Cassidy, David; Rutherford, James

    2002-01-01

    Understanding Physics provides a thorough grounding in contemporary physics while placing physics into its social and historical context Based in large part on the highly respected Project Physics Course developed by two of the authors, it also integrates the results of recent pedagogical research The text thus - teaches about the basic phenomena in the physical world and the concepts developed to explain them - shows that science is a rational human endeavor with a long and continuing tradition, involving many different cultures and people - develops facility in critical thinking, reasoned argumentation, evaluation of evidence, mathematical modeling, and ethical values The treatment emphasizes not only what we know but also how we know it, why we believe it, and what effects that knowledge has - Why do we believe the Earth and planets revolve around the Sun? - Why do we believe that matter is made of atoms? - How do relativity theory and quantum mechanics alter our conception of Nature and in what ways do th...

  16. Iconicity as structure mapping.

    Science.gov (United States)

    Emmorey, Karen

    2014-09-19

    Linguistic and psycholinguistic evidence is presented to support the use of structure-mapping theory as a framework for understanding effects of iconicity on sign language grammar and processing. The existence of structured mappings between phonological form and semantic mental representations has been shown to explain the nature of metaphor and pronominal anaphora in sign languages. With respect to processing, it is argued that psycholinguistic effects of iconicity may only be observed when the task specifically taps into such structured mappings. In addition, language acquisition effects may only be observed when the relevant cognitive abilities are in place (e.g. the ability to make structural comparisons) and when the relevant conceptual knowledge has been acquired (i.e. information key to processing the iconic mapping). Finally, it is suggested that iconicity is better understood as a structured mapping between two mental representations than as a link between linguistic form and human experience.

  17. Geologic map of Mars

    Science.gov (United States)

    Tanaka, Kenneth L.; Skinner, James A.; Dohm, James M.; Irwin, Rossman P.; Kolb, Eric J.; Fortezzo, Corey M.; Platz, Thomas; Michael, Gregory G.; Hare, Trent M.

    2014-01-01

    This global geologic map of Mars, which records the distribution of geologic units and landforms on the planet's surface through time, is based on unprecedented variety, quality, and quantity of remotely sensed data acquired since the Viking Orbiters. These data have provided morphologic, topographic, spectral, thermophysical, radar sounding, and other observations for integration, analysis, and interpretation in support of geologic mapping. In particular, the precise topographic mapping now available has enabled consistent morphologic portrayal of the surface for global mapping (whereas previously used visual-range image bases were less effective, because they combined morphologic and albedo information and, locally, atmospheric haze). Also, thermal infrared image bases used for this map tended to be less affected by atmospheric haze and thus are reliable for analysis of surface morphology and texture at even higher resolution than the topographic products.

  18. Application of ecological mapping

    International Nuclear Information System (INIS)

    The US Fish and Wildlife Service has initiated the production of a comprehensive ecological inventory map series for use as a major new planning tool. Important species data along with special land use designations are displayed on 1:250,000 scale topographic base maps. Sets of maps have been published for the Atlantic and Pacific coastal areas of the United States. Preparation of a map set for the Gulf of Mexico is underway at the present time. Potential application of ecological inventory map series information to a typical land disposal facility could occur during the narrowing of the number of possible disposal sites, the design of potential disposal site studies of ecological resources, the preparation of the environmental report, and the regulatory review of license applications. 3 figures, 3 tables

  19. The piggyBac-Based Gene Delivery System Can Confer Successful Production of Cloned Porcine Blastocysts with Multigene Constructs.

    Science.gov (United States)

    Sato, Masahiro; Maeda, Kosuke; Koriyama, Miyu; Inada, Emi; Saitoh, Issei; Miura, Hiromi; Ohtsuka, Masato; Nakamura, Shingo; Sakurai, Takayuki; Watanabe, Satoshi; Miyoshi, Kazuchika

    2016-01-01

    The introduction of multigene constructs into single cells is important for improving the performance of domestic animals, as well as understanding basic biological processes. In particular, multigene constructs allow the engineering and integration of multiple genes related to xenotransplantation into the porcine genome. The piggyBac (PB) transposon system allows multiple genes to be stably integrated into target genomes through a single transfection event. However, to our knowledge, no attempt to introduce multiple genes into a porcine genome has been made using this system. In this study, we simultaneously introduced seven transposons into a single porcine embryonic fibroblast (PEF). PEFs were transfected with seven transposons containing genes for five drug resistance proteins and two (red and green) fluorescent proteins, together with a PB transposase expression vector, pTrans (experimental group). The above seven transposons (without pTrans) were transfected concomitantly (control group). Selection of these transfected cells in the presence of multiple selection drugs resulted in the survival of several clones derived from the experimental group, but not from the control. PCR analysis demonstrated that approximately 90% (12/13 tested) of the surviving clones possessed all of the introduced transposons. Splinkerette PCR demonstrated that the transposons were inserted through the TTAA target sites of PB. Somatic cell nuclear transfer (SCNT) using a PEF clone with multigene constructs demonstrated successful production of cloned blastocysts expressing both red and green fluorescence. These results indicate the feasibility of this PB-mediated method for simultaneous transfer of multigene constructs into the porcine cell genome, which is useful for production of cloned transgenic pigs expressing multiple transgenes. PMID:27589724

  20. The piggyBac-Based Gene Delivery System Can Confer Successful Production of Cloned Porcine Blastocysts with Multigene Constructs

    Science.gov (United States)

    Sato, Masahiro; Maeda, Kosuke; Koriyama, Miyu; Inada, Emi; Saitoh, Issei; Miura, Hiromi; Ohtsuka, Masato; Nakamura, Shingo; Sakurai, Takayuki; Watanabe, Satoshi; Miyoshi, Kazuchika

    2016-01-01

    The introduction of multigene constructs into single cells is important for improving the performance of domestic animals, as well as understanding basic biological processes. In particular, multigene constructs allow the engineering and integration of multiple genes related to xenotransplantation into the porcine genome. The piggyBac (PB) transposon system allows multiple genes to be stably integrated into target genomes through a single transfection event. However, to our knowledge, no attempt to introduce multiple genes into a porcine genome has been made using this system. In this study, we simultaneously introduced seven transposons into a single porcine embryonic fibroblast (PEF). PEFs were transfected with seven transposons containing genes for five drug resistance proteins and two (red and green) fluorescent proteins, together with a PB transposase expression vector, pTrans (experimental group). The above seven transposons (without pTrans) were transfected concomitantly (control group). Selection of these transfected cells in the presence of multiple selection drugs resulted in the survival of several clones derived from the experimental group, but not from the control. PCR analysis demonstrated that approximately 90% (12/13 tested) of the surviving clones possessed all of the introduced transposons. Splinkerette PCR demonstrated that the transposons were inserted through the TTAA target sites of PB. Somatic cell nuclear transfer (SCNT) using a PEF clone with multigene constructs demonstrated successful production of cloned blastocysts expressing both red and green fluorescence. These results indicate the feasibility of this PB-mediated method for simultaneous transfer of multigene constructs into the porcine cell genome, which is useful for production of cloned transgenic pigs expressing multiple transgenes. PMID:27589724

  1. The CHUVA Lightning Mapping Campaign

    Science.gov (United States)

    Goodman, Steven J.; Blakeslee, Richard J.; Bailey, Jeffrey C.; Carey, Lawrence D.; Hoeller, Hartmut; Albrecht, Rachel I.; Morales, Carlos; Pinto, Osmar; Saba, Marcelo M.; Naccarato, Kleber; Hembury, Nikki; Nag, Amitabh; Heckman, Stan; Holzworth, Robert H.; Rudlosky, Scott D.; Betz, Hans-Dieter; Said, Ryan; Rauenzahn, Kim

    2011-01-01

    The primary science objective for the CHUVA lightning mapping campaign is to combine measurements of total lightning activity, lightning channel mapping, and detailed information on the locations of cloud charge regions of thunderstorms with the planned observations of the CHUVA (Cloud processes of tHe main precipitation systems in Brazil: A contribUtion to cloud resolVing modeling and to the GPM (GlobAl Precipitation Measurement) field campaign. The lightning campaign takes place during the CHUVA intensive observation period October-December 2011 in the vicinity of S o Luiz do Paraitinga with Brazilian, US, and European government, university and industry participants. Total lightning measurements that can be provided by ground-based regional 2-D and 3-D total lightning mapping networks coincident with overpasses of the Tropical Rainfall Measuring Mission Lightning Imaging Sensor (LIS) and the SEVIRI (Spinning Enhanced Visible and Infrared Imager) on the Meteosat Second Generation satellite in geostationary earth orbit will be used to generate proxy data sets for the next generation US and European geostationary satellites. Proxy data, which play an important role in the pre-launch mission development and in user readiness preparation, are used to develop and validate algorithms so that they will be ready for operational use quickly following the planned launch of the GOES-R Geostationary Lightning Mapper (GLM) in 2015 and the Meteosat Third Generation Lightning Imager (LI) in 2017. To date there is no well-characterized total lightning data set coincident with the imagers. Therefore, to take the greatest advantage of this opportunity to collect detailed and comprehensive total lightning data sets, test and validate multi-sensor nowcasting applications for the monitoring, tracking, warning, and prediction of severe and high impact weather, and to advance our knowledge of thunderstorm physics, extensive measurements from lightning mapping networks will be collected

  2. Mental Mapping: A Classroom Strategy

    Science.gov (United States)

    Solomon, Les

    1978-01-01

    Examines potential uses of mental maps in the classroom by reviewing research efforts, providing an example of the differences between mental maps of two student groups, and suggesting how to use mental maps in the geography curriculum. Mental mapping (or cognitive mapping) refers to individuals' processes of collecting, storing, and retrieving…

  3. nowCOAST's Map Service for Political Map Overlays

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — Map Information: This nowCOAST map service provides map overlays depicting the boundaries of U.S. states, territories, counties and townships/county subdivisions,...

  4. nowCOAST's Map Service for Transportation Map Overlays

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — Map Information: This nowCOAST map service provides maps depicting the locations of major world airport runways, major U.S. seaports, and latitude/longitude grid...

  5. The geologic mapping of asteroid Vesta

    Science.gov (United States)

    Williams, D.; Yingst, A.; Garry, B.

    2014-07-01

    As part of NASA's Dawn mission [1,2] we conducted a geologic mapping campaign to provide a systematic, cartography-based initial characterization of the global and regional geology of asteroid Vesta. The goal of geological maps is to place observations of surface features into their stratigraphic context to develop a geologic history of the evolution of planetary surfaces. Geologic mapping reduces the complexity of heterogeneous planetary surfaces into comprehensible portions, defining and characterizing discrete material units based upon physical attributes related to the geologic processes that produced them, and enabling identification of the relative roles of various processes (impact cratering, tectonism, volcanism, erosion and deposition) in shaping planetary surfaces [3,4]. The Dawn Science Team produced cartographic products of Vesta from the Framing Camera images, including global mosaics as well as 15 regional quadrangles [5], which served as bases for the mapping. We oversaw the geologic mapping campaign during the Nominal Mission, including production of a global geologic map at scale 1:500,000 using images from the High Altitude Mapping Orbit [6] and 15 quadrangle geologic maps at scale 1:250,000 using images from the Low Altitude Mapping Orbit [7]. The goal was to support the Dawn Team by providing geologic and stratigraphic context of surface features and supporting the analysis of data from the Visible and Infrared Spectrometer (VIR) and the Gamma Ray and Neutron Detector (GRaND). Mapping was done using ArcGIS™ software, in which quadrangle mapping built on interpretations derived from the global geologic map but were updated and modified to take advantage of the highest spatial resolution data. Despite challenges (e.g., Vesta's highly sloped surface [8] deforms impact craters and produces mass movements that buries contacts), we were successfully able to map the whole surface of Vesta and identify a geologic history as represented in our maps and

  6. Plasma physics

    CERN Document Server

    Drummond, James E

    2013-01-01

    A historic snapshot of the field of plasma physics, this fifty-year-old volume offers an edited collection of papers by pioneering experts in the field. In addition to assisting students in their understanding of the foundations of classical plasma physics, it provides a source of historic context for modern physicists. Highly successful upon its initial publication, this book was the standard text on plasma physics throughout the 1960s and 70s.Hailed by Science magazine as a ""well executed venture,"" the three-part treatment ranges from basic plasma theory to magnetohydrodynamics and microwa

  7. Statistical physics

    CERN Document Server

    Wannier, Gregory H

    2010-01-01

    Until recently, the field of statistical physics was traditionally taught as three separate subjects: thermodynamics, statistical mechanics, and kinetic theory. This text, a forerunner in its field and now a classic, was the first to recognize the outdated reasons for their separation and to combine the essentials of the three subjects into one unified presentation of thermal physics. It has been widely adopted in graduate and advanced undergraduate courses, and is recommended throughout the field as an indispensable aid to the independent study and research of statistical physics.Designed for

  8. Interpreting Physics

    CERN Document Server

    MacKinnon, Edward

    2012-01-01

    This book is the first to offer a systematic account of the role of language in the development and interpretation of physics. An historical-conceptual analysis of the co-evolution of mathematical and physical concepts leads to the classical/quatum interface. Bohrian orthodoxy stresses the indispensability of classical concepts and the functional role of mathematics. This book analyses ways of extending, and then going beyond this orthodoxy orthodoxy. Finally, the book analyzes how a revised interpretation of physics impacts on basic philosophical issues: conceptual revolutions, realism, and r

  9. Atomic Physics

    CERN Document Server

    Foot, Christopher J

    2007-01-01

    This text will thoroughly update the existing literature on atomic physics. Intended to accompany an advanced undergraduate course in atomic physics, the book will lead the students up to the latest advances and the applications to Bose-Einstein Condensation of atoms, matter-wave inter-ferometry and quantum computing with trapped ions. The elementary atomic physics covered in the early chapters should be accessible to undergraduates when they are first introduced to the subject. To complement. the usual quantum mechanical treatment of atomic structure the book strongly emphasizes the experimen

  10. Complex systems: physics beyond physics

    CERN Document Server

    Holovatch, Yurij; Thurner, Stefan

    2016-01-01

    Complex systems are characterized by specific time-dependent interactions among their many constituents. As a consequence they often manifest rich, non-trivial and unexpected behavior. Examples arise both in the physical and non-physical world. The study of complex systems forms a new interdisciplinary research area that cuts across physics, biology, ecology, economics, sociology, and the humanities. In this paper we review the essence of complex systems from a physicist's point of view, and try to clarify what makes them conceptually different from systems that are traditionally studied in physics. Our goal is to demonstrate how the dynamics of such systems may be conceptualized in quantitative and predictive terms by extending notions from statistical physics and how they can often be captured in a framework of co-evolving multiplex network structures. We mention three areas of complex-systems science that are currently studied extensively, the science of cities, dynamics of societies, and the representatio...

  11. Color on emergency mapping

    Science.gov (United States)

    Jiang, Lili; Qi, Qingwen; Zhang, An

    2007-06-01

    There are so many emergency issues in our daily life. Such as typhoons, tsunamis, earthquake, fires, floods, epidemics, etc. These emergencies made people lose their lives and their belongings. Every day, every hour, even every minute people probably face the emergency, so how to handle it and how to decrease its hurt are the matters people care most. If we can map it exactly before or after the emergencies; it will be helpful to the emergency researchers and people who live in the emergency place. So , through the emergency map, before emergency is occurring we can predict the situation, such as when and where the emergency will be happen; where people can refuge, etc. After disaster, we can also easily assess the lost, discuss the cause and make the lost less. The primary effect of mapping is offering information to the people who care about the emergency and the researcher who want to study it. Mapping allows the viewers to get a spatial sense of hazard. It can also provide the clues to study the relationship of the phenomenon in emergency. Color, as the basic element of the map, it can simplify and clarify the phenomenon. Color can also affects the general perceptibility of the map, and elicits subjective reactions to the map. It is to say, structure, readability, and the reader's psychological reactions can be affected by the use of color.

  12. Mapped Chebyshev pseudospectral method to study multiple scale phenomena

    CERN Document Server

    alexandrescu, Adrian; Salgueiro, Jose R; Perez-Garcia, Victor M

    2007-01-01

    In the framework of mapped pseudospectral methods, we introduce a new polynomial-type mapping function in order to describe accurately the dynamics of systems developing almost singular structures. Using error criteria related to the spectral interpolation error, the new polynomial-type mapping is compared against previously proposed mappings for the study of collapse and shock wave phenomena. As a physical application, we study the dynamics of two coupled beams, described by coupled nonlinear Schr\\"odinger equations and modeling beam propagation in an atomic coherent media, whose spatial sizes differs up to several orders of magnitude. It is demonstrated, also by numerical simulations, that the accuracy properties of the new polynomial-type mapping outperforms in orders of magnitude the ones of the other studied mapping functions.

  13. Blind Friendly Maps

    OpenAIRE

    Červenka, Petr; Břinda, Karel; Seifert, Radek; Hofman, Petr

    2016-01-01

    Space concept of the surrounding area is one of the most important preconditions of the independent mobility and orientation of the blind people. Tactile maps are considered to be the most appropriate source of spatial information. One of the main problems of the tactile maps usage is their problematic accessibility for the blind users since they are not available in time and with up-to-date content. The map production is a matter of tedious manual work and a result of expensive and time-cons...

  14. Diffusion Based Photon Mapping

    DEFF Research Database (Denmark)

    Schjøth, Lars; Olsen, Ole Fogh; Sporring, Jon

    2006-01-01

    . To address this problem we introduce a novel photon mapping algorithm based on nonlinear anisotropic diffusion. Our algorithm adapts according to the structure of the photon map such that smoothing occurs along edges and structures and not across. In this way we preserve the important illumination features......Density estimation employed in multi-pass global illumination algorithms give cause to a trade-off problem between bias and noise. The problem is seen most evident as blurring of strong illumination features. In particular this blurring erodes fine structures and sharp lines prominent in caustics......, while eliminating noise. We call our method diffusion based photon mapping....

  15. Map: Geospatial paradigm

    OpenAIRE

    Ikonović Vesna

    2006-01-01

    There are different definitions of map. There is no one which is accepted in whole world or at least from the most cartographers. In the paper it will be given several definitions which are, at the best way, (according to the author’s opinion) reflecting essence of map as a model of reality. Map as a universal meaning of researching can’t serve only for representing particular geospace (spatial system) or some its element, or to give only clear view about geographical dispersion of objects, p...

  16. Map: Geospatial paradigm

    Directory of Open Access Journals (Sweden)

    Ikonović Vesna

    2006-01-01

    Full Text Available There are different definitions of map. There is no one which is accepted in whole world or at least from the most cartographers. In the paper it will be given several definitions which are, at the best way, (according to the author’s opinion reflecting essence of map as a model of reality. Map as a universal meaning of researching can’t serve only for representing particular geospace (spatial system or some its element, or to give only clear view about geographical dispersion of objects, phenomena and processes, but have to make possible studying the patterns of that dispersion, as well as their mutual connections and conditions.

  17. Engineering physics

    CERN Document Server

    Mukherji, Uma

    2015-01-01

    ENGINEERING PHYSICS is designed as a textbook for first year engineering students of a two semester course in Applied Physics according to new revised syllabus. However the scope of this book is not only limited to undergraduate engineering students and science students, it can also serve as a reference book for practicing scientists.Advanced technological topics like LCD, Squid, Maglev system, Electron microscopes, MRI, Photonics - Photonic fibre, Nano-particles, CNT, Quantum computing etc., are explained with basic underlying principles of Physics.This text explained following topics with numerous solved, unsolved problems and questions from different angles. Part-I contains crystal structure, Liquid crystal, Thermo-electric effect, Thermionic emission, Ultrasonic, Acoustics, semiconductor and magnetic materials. Whereas Part-2 contains Optics, X-rays, Electron optics, Dielectric materials, Quantum Physics and Schrodinger wave equation, Laser, Fibre-optics and Holography, Radio-activity, Super-conductivity,...

  18. Physical oceanography

    Digital Repository Service at National Institute of Oceanography (India)

    Murty, C.S.; Murty, V.S.N.

    The chapter on physical oceanography of the Indian Ocean is written keeping in mind the graduate students and researchers. It starts with a brief introduction (citing latest expeditions) followed by the coastal and near processes (wave climate...

  19. Magic Physics?

    Science.gov (United States)

    Featonby, David

    2010-01-01

    This article examines several readily available "magic tricks" which base their "trickery" on physics principles, and questions the use of the word "magic" in the 21st century, both in popular children's science and in everyday language. (Contains 18 figures.)

  20. Physical mathematics

    CERN Document Server

    Cahill, Kevin

    2013-01-01

    Unique in its clarity, examples and range, Physical Mathematics explains as simply as possible the mathematics that graduate students and professional physicists need in their courses and research. The author illustrates the mathematics with numerous physical examples drawn from contemporary research. In addition to basic subjects such as linear algebra, Fourier analysis, complex variables, differential equations and Bessel functions, this textbook covers topics such as the singular-value decomposition, Lie algebras, the tensors and forms of general relativity, the central limit theorem and Kolmogorov test of statistics, the Monte Carlo methods of experimental and theoretical physics, the renormalization group of condensed-matter physics and the functional derivatives and Feynman path integrals of quantum field theory.

  1. Construction of BAC Physical Map on Chro moso me A9 in Brassica juncea and Co mparative Geno me Analysis%芥菜型油菜A9染色体BAC物理图谱构建及比较基因组分析

    Institute of Scientific and Technical Information of China (English)

    刘芳瑛; 陆赢; 王卓; 刘显军; 胡学芳; 刘旭东; 徐海鹏; 刘忠松

    2016-01-01

    To abtain a precise physical map of Brassica juncea chromosome A9,the markers located on the A9 chromosome were used in this study to screen Brassica juncea BAC library by three-dimensional mixed PCR screening. A total of 3200 positive BAC were screened out;constructing a physical map composed of 16 contigs and 4 singletons. According to the principle of the minimum path,435 BACs were chosen as seed BACs to represent the whole physical map and were subject to end sequencing,at last,862 qualified sequences were received. As the average insert size of BAC is 126 kb,the contigs accounted up to 52. 08 M,covering 1. 37 times of chromosome A9. By BLAST,the seed BAC end sequences were mapped to chromosome A9 pseudomolecule of Brassica rapa and Brassica napus respectively,results showed that the physical map covered 36. 4 Mb and 31. 0 Mb,equivalent to 93. 9%、91. 8% of the whole genome assemble length. Among the 862 BAC end sequences,702 sequences (81. 4%)were located on Brassica rapa A9 chromosome and 646 sequences(74. 9%)to Brassica napus A9 chromosome,which means Brassica juncea A9 chromosome have higher homology with Brassica rapa A9 chromosome than Brassica napus A9 chromosome. Compared with Brassica napus A9 pseudomolecule and BAC end se-quence of Brassica juncea A9 chromosome,there are two chromosome inversions about 1. 4 Mb、3. 6 Mb in length at the po-sition of 6413031-7827177 and 14856710-18458808 in Brassica rapa A9. While compared with BAC end sequence of Bras-sica juncea A9,there is a inserted mutation about 0. 98 Mb in length at the position of 15676847-16064302 of Brassica na-pus A9 pseudomolecule,which lie in one of the two chromosome inversions and was consist with the predicted position of centromere of Brassica napus A9 chromosome remained to assembled.%为获得高精确度的芥菜型油菜A9染色体物理图,本研究利用定位在A9染色体上的标记对芥菜型油菜BAC文库进行三维混合PCR筛选,共得到阳性BAC 3200

  2. Ultrasound physics.

    Science.gov (United States)

    Shriki, Jesse

    2014-01-01

    Bedside ultrasound has become an important modality for obtaining critical information in the acute care of patients. It is important to understand the physics of ultrasound in order to perform and interpret images at the bedside. The physics of both continuous wave and pulsed wave sound underlies diagnostic ultrasound. The instrumentation, including transducers and image processing, is important in the acquisition of appropriate sonographic images. Understanding how these concepts interplay with each other enables practitioners to obtain the best possible images.

  3. Neutrino Physics

    CERN Document Server

    Xing, Zhi-Zhong

    2014-01-01

    I give a theoretical overview of some basic properties of massive neutrinos in these lectures. Particular attention is paid to the origin of neutrino masses, the pattern of lepton flavor mixing, the feature of leptonic CP violation and the electromagnetic properties of massive neutrinos. I highlight the TeV seesaw mechanisms as a possible bridge between neutrino physics and collider physics in the era characterized by the Large Hadron Collider.

  4. Neutrino Physics

    CERN Document Server

    Romanino, Andrea

    2012-01-01

    These lectures aim at providing a pedagogical overview of neutrino physics. We will mostly deal with standard neutrinos, the ones that are part of the Standard Model of particle physics, and with their standard dynamics, which is enough to understand in a coherent picture most of the rich data available. After introducing the basic theoretical framework, we will illustrate the experimental determination of the neutrino parameters and their theoretical implications, in particular for the origin of neutrino masses.

  5. Northern Hemisphere Synoptic Weather Maps

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — Daily Series of Synoptic Weather Maps. Part I consists of plotted and analyzed daily maps of sea-level and 500-mb maps for 0300, 0400, 1200, 1230, 1300, and 1500...

  6. High-Resolution Radiation Hybrid Map of Wheat Chromosome 1D

    OpenAIRE

    Kalavacharla, Venu; Hossain, Khwaja; Gu, Yong; Riera-Lizarazu, Oscar; Vales, M. Isabel; Bhamidimarri, Suresh; Gonzalez-Hernandez, Jose L.; Maan, Shivcharan S; Kianian, Shahryar F

    2006-01-01

    Physical mapping methods that do not rely on meiotic recombination are necessary for complex polyploid genomes such as wheat (Triticum aestivum L.). This need is due to the uneven distribution of recombination and significant variation in genetic to physical distance ratios. One method that has proven valuable in a number of nonplant and plant systems is radiation hybrid (RH) mapping. This work presents, for the first time, a high-resolution radiation hybrid map of wheat chromosome 1D (D geno...

  7. Chromosome mapping by FISH to metaphase and interphase nuclei. Final report

    Energy Technology Data Exchange (ETDEWEB)

    Trask, B.

    1997-08-01

    The overall specific aims of this project were: (1) to determine the large-scale structure of interphase and metaphase chromosomes, in order to establish new capabilities for genome mapping by fluorescence in situ hybridization (FISH); (2) to detect chromosome abnormalities associated with genetic disease and map DNA sequences relative to them in order to facilitate the identification of new genes with disease-causing mutations; (3) to establish medium resolution physical maps of selected chromosomal regions using a combined metaphase and interphase mapping strategy and to corroborate physical and genetic maps and integrate these maps with the cytogenetic map; (4) to analyze the polymorphism and sequence evolution of subtelomeric regions of human chromosomes; (5) to establish a state-of-the-art FISH and image processing facility in the Department of Molecular Biotechnology, University of Washington, in order to map DNA sequences rapidly and accurately to benefit the Human Genome Project.

  8. A first generation integrated map of the rainbow trout genome

    Directory of Open Access Journals (Sweden)

    Tabet-Canale Kamila

    2011-04-01

    Full Text Available Abstract Background Rainbow trout (Oncorhynchus mykiss are the most-widely cultivated cold freshwater fish in the world and an important model species for many research areas. Coupling great interest in this species as a research model with the need for genetic improvement of aquaculture production efficiency traits justifies the continued development of genomics research resources. Many quantitative trait loci (QTL have been identified for production and life-history traits in rainbow trout. An integrated physical and genetic map is needed to facilitate fine mapping of QTL and the selection of positional candidate genes for incorporation in marker-assisted selection (MAS programs for improving rainbow trout aquaculture production. Results The first generation integrated map of the rainbow trout genome is composed of 238 BAC contigs anchored to chromosomes of the genetic map. It covers more than 10% of the genome across segments from all 29 chromosomes. Anchoring of 203 contigs to chromosomes of the National Center for Cool and Cold Water Aquaculture (NCCCWA genetic map was achieved through mapping of 288 genetic markers derived from BAC end sequences (BES, screening of the BAC library with previously mapped markers and matching of SNPs with BES reads. In addition, 35 contigs were anchored to linkage groups of the INRA (French National Institute of Agricultural Research genetic map through markers that were not informative for linkage analysis in the NCCCWA mapping panel. The ratio of physical to genetic linkage distances varied substantially among chromosomes and BAC contigs with an average of 3,033 Kb/cM. Conclusions The integrated map described here provides a framework for a robust composite genome map for rainbow trout. This resource is needed for genomic analyses in this research model and economically important species and will facilitate comparative genome mapping with other salmonids and with model fish species. This resource will also

  9. Molecular mapping of chromosomes 17 and X

    Energy Technology Data Exchange (ETDEWEB)

    Barker, D.F.

    1989-01-01

    The basic aims of this project are the construction of high density genetic maps of chromosomes 17 and X and the utilization of these maps for the subsequent isolation of a set of physically overlapping DNA segment clones. The strategy depends on the utilization of chromosome specific libraries of small (1--15 kb) segments from each of the two chromosomes. Since the time of submission of our previous progress report, we have refined the genetic map of markers which we had previously isolated for chromosome 17. We have completed our genetic mapping in CEPH reference and NF1 families of 15 markers in the pericentric region of chromosome 17. Physical mapping results with three probes, were shown be in very close genetic proximity to the NF1 gene, with respect to two translocation breakpoints which disrupt the activity of the gene. All three of the probes were found to lie between the centromere and the most proximal translocation breakpoint, providing important genetic markers proximal to the NF1 gene. Our primary focus has shifted to the X chromosome. We have isolated an additional 30 polymorphic markers, bringing the total number we have isolated to over 80. We have invested substantial effort in characterizing the polymorphisms at each of these loci and constructed plasmid subclones which reveal the polymorphisms for nearly all of the loci. These subclones are of practical value in that they produce simpler and stronger patterns on human genomic Southern blots, thus improving the efficiency of the genetic mapping experiments. These subclones may also be of value for deriving DNA sequence information at each locus, necessary for establishing polymerase chain reaction primers specific for each locus. Such information would allow the use of each locus as a sequence tagged site.

  10. Eclipse mapping of accretion discs

    CERN Document Server

    Baptista, R

    2000-01-01

    The eclipse mapping method is an inversion technique that makes use of the information contained in eclipse light curves to probe the structure, the spectrum and the time evolution of accretion discs. In this review I present the basics of the method and discuss its different implementations. I summarize the most important results obtained to date and discuss how they have helped to improve our understanding of accretion physics, from testing the theoretical radial brightness temperature distribution and measuring mass accretion rates to showing the evolution of the structure of a dwarf novae disc through its outburst cycle, from isolating the spectrum of a disc wind to revealing the geometry of disc spiral shocks. I end with an outline of the future prospects.

  11. Irreducibility properties of Keller maps

    OpenAIRE

    de Bondt, Michiel; Yan, Dan

    2013-01-01

    Jedrzejewicz showed that a polynomial map over a field of characteristic zero is invertible, if and only if the corresponding endomorphism maps irreducible polynomials to irreducible polynomials. Furthermore, he showed that a polynomial map over a field of characteristic zero is a Keller map, if and only if the corresponding endomorphism maps irreducible polynomials to square-free polynomials. We show that the latter endomorphism maps other square-free polynomials to square-free polynomials a...

  12. Two views of functional mapping and autoradiography

    International Nuclear Information System (INIS)

    This chapter is meant to serve as an initial introduction into the use and analysis of functional mapping with radiotracers and film autoradiography. The first section describes functional autoradiography from a biologist's point of view, reviewing the advantages of radiotracers for bridging the gap between behavior and neurophysiology. The physical and chemical assumptions underlying the use of radiotracers in biological systems are then examined. The second section looks at the autoradiogram from an engineering standpoint and investigates how the basic physics of radioactive decay influences the measured parameters of autoradiographs. The problems of video densitometry and the quantification of optical density and isotope concentrations are discussed

  13. Organ mapping using parelectric spectroscopy

    International Nuclear Information System (INIS)

    Whenever physical methods are used in the field of diagnostics, it is necessary to find an unambiguous mapping of the properties of the tested tissues (e.g. normal or pathologic) to their answer to the respective analysis tool such as nuclear magnetic resonance (NMR), ultrasound, x-rays or the relatively new method of parelectric spectroscopy (PS). The well-established non-invasive NMR method has, by now, a sufficiently wide-spread atlas of such mappings. This has to be contrasted to the situation of the PS method where first experiments showed the fulfilment of conditions necessary for any reliable diagnosis, namely the uncertainties of the results being small compared to the differences between the normal and pathologic state of the tissues under test. To help close this gap, we present here results of the behaviour of 12 different organs of mice, taken 20 min after excision and give the dependence of the two most essential PS parameters, the dipole density Δε and the mobility f0, on the type of healthy organs. To be able to use tumorous tissues preserved in formaldehyde after excision for comparison purposes, we have been measuring the changes of some organs between the fresh state and the preserved state under formaldehyde for over 180 min each

  14. Organ mapping using parelectric spectroscopy

    Energy Technology Data Exchange (ETDEWEB)

    Blaschke, T [Department of Physics, Freie Universitaet Berlin, Berlin (Germany); Sivaramakrishnan, R [Department of Physics, Humboldt-Universitaet zu Berlin, Berlin (Germany); Gross, M [Department of Audiology and Phoniatrics, Charite University Medicine, Berlin (Germany); Kramer, K D [Department of Physics, Freie Universitaet Berlin, Berlin (Germany)

    2006-03-21

    Whenever physical methods are used in the field of diagnostics, it is necessary to find an unambiguous mapping of the properties of the tested tissues (e.g. normal or pathologic) to their answer to the respective analysis tool such as nuclear magnetic resonance (NMR), ultrasound, x-rays or the relatively new method of parelectric spectroscopy (PS). The well-established non-invasive NMR method has, by now, a sufficiently wide-spread atlas of such mappings. This has to be contrasted to the situation of the PS method where first experiments showed the fulfilment of conditions necessary for any reliable diagnosis, namely the uncertainties of the results being small compared to the differences between the normal and pathologic state of the tissues under test. To help close this gap, we present here results of the behaviour of 12 different organs of mice, taken 20 min after excision and give the dependence of the two most essential PS parameters, the dipole density {delta}{epsilon} and the mobility f{sub 0}, on the type of healthy organs. To be able to use tumorous tissues preserved in formaldehyde after excision for comparison purposes, we have been measuring the changes of some organs between the fresh state and the preserved state under formaldehyde for over 180 min each.

  15. MAPPING IN MICRONESIA.

    Science.gov (United States)

    Olsen, Randle W.; Swinnerton, J.R.

    1984-01-01

    The U. S. Geological Survey has recently completed a series of new topographic maps of Micronesia in cooperation with the Trust Territory of the Pacific Islands, the Federal agency administering the islands. Monocolor 1:10,000-scale manuscripts were compiled, from which 1:25,000-scale metric quadrangles were derived with symbology consistent with USGS quadrangle mapping. The publication of these new maps coincides with the impending political changes resulting from self-determination referendums held in Micronesia. Local sources have helped considerably with field logistics and resolution of geographic name controversies. Technical aspects of this project included development of tropical feature symbology, location of cadastral subdivisions and associated boundaries and mapping of many outlying coral reefs.

  16. The CPD Maps System

    Data.gov (United States)

    Department of Housing and Urban Development — CPD Maps includes data on the locations of existing CDBG, HOME, public housing and other HUD-funded community assets, so that users can view past investments...

  17. Interest rates mapping

    CERN Document Server

    Kanevski, M; Pozdnoukhov, A; Timonin, V

    2007-01-01

    The present study deals with the analysis and mapping of Swiss franc interest rates. Interest rates depend on time and maturity, defining term structure of the interest rate curves (IRC). In the present study IRC are considered in a two-dimensional feature space - time and maturity. Geostatistical models and machine learning algorithms (multilayer perceptron and Support Vector Machines) were applied to produce interest rate maps. IR maps can be used for the visualisation and patterns perception purposes, to develop and to explore economical hypotheses, to produce dynamic asses-liability simulations and for the financial risk assessments. The feasibility of an application of interest rates mapping approach for the IRC forecasting is considered as well.

  18. MUTYH Associated Polyposis (MAP)

    DEFF Research Database (Denmark)

    Poulsen, Marie Louise Mølgaard; Bisgaard, M L

    2008-01-01

    MUTYH Associated Polyposis (MAP), a Polyposis predisposition caused by biallelic mutations in the Base Excision Repair (BER) gene MUTYH, confers a marked risk of colorectal cancer (CRC). The MAP phenotype is difficult to distinguish from other hereditary CRC syndromes. Especially from Familial...... Adenomatous Polyposis (FAP) and to a lesser extend Lynch Syndrome, which are caused by germline mutations in the APC and Mismatch Repair (MMR) genes, respectively.Here we review research findings regarding MUTYH interactions, genotypic and phenotypic characteristics of MAP, as well as surveillance...... and treatment of the disease. The applied papers, published between 1/1 2002- 1/2 2008, were found through PubMed.The exact role of MUTYH in CRC tumorgenesis is still uncertain, although MAP tumors show distinct molecular features, including somatic G:C>T:A transversions in the APC gene. Furthermore...

  19. Daily Weather Maps

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — Several different government offices have published the Daily weather maps over its history. The publication has also gone by different names over time. The U.S....

  20. PDS Planetary Maps API

    Data.gov (United States)

    National Aeronautics and Space Administration — We are developing a set of NASA Extensions to the Google Maps API—and soon to other frameworks such as OpenLayers as well—that will make these platforms more useful...

  1. NOS Bathymetric Maps

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — This collection of bathymetric contour maps which represent the seafloor topography includes over 400 individual titles and covers US offshore areas including...

  2. Minidoka - Invasive Species Mapping

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — Locate and map, via the use of GPS, Rush skeletonweed on the refuge. Located areas then entered into GIS to allow refuge staff to pin point locations and treat this...

  3. Mapping the HISS Dipole

    International Nuclear Information System (INIS)

    The principal component of the Bevalac HISS facility is a large super-conducting 3 Tesla dipole. The facility's need for a large magnetic volume spectrometer resulted in a large gap geometry - a 2 meter pole tip diameter and a 1 meter pole gap. Obviously, the field required detailed mapping for effective use as a spectrometer. The mapping device was designed with several major features in mind. The device would measure field values on a grid which described a closed rectangular solid. The grid would be a regular with the exact measurement intervals adjustable by software. The device would function unattended over the long period of time required to complete a field map. During this time, the progress of the map could be monitored by anyone with access to the HISS VAX computer. Details of the mechanical, electrical, and control design follow

  4. TOXMAP®: Environmental Health Maps

    Data.gov (United States)

    U.S. Department of Health & Human Services — TOXMAP® is a Geographic Information System (GIS) that uses maps of the United States and Canada to help users visually explore data primarily from the EPA's Toxics...

  5. Haz-Map

    Data.gov (United States)

    U.S. Department of Health & Human Services — Haz-Map is an occupational health database designed for health and safety professionals and for consumers seeking information about the adverse effects of workplace...

  6. FLOODPLAIN MAPPING, Bandera, TEXAS

    Data.gov (United States)

    Federal Emergency Management Agency, Department of Homeland Security — The Floodplain Mapping/Redelineation study deliverables depict and quantify the flood risks for the study area. The primary risk classifications used are the...

  7. MetaMap

    Data.gov (United States)

    U.S. Department of Health & Human Services — MetaMap is a highly configurable application developed by the Lister Hill National Center for Biomedical Communications at the National Library of Medicine (NLM) to...

  8. Programming with Hierarchical Maps

    DEFF Research Database (Denmark)

    Ørbæk, Peter

    This report desribes the hierarchical maps used as a central data structure in the Corundum framework. We describe its most prominent features, ague for its usefulness and briefly describe some of the software prototypes implemented using the technology....

  9. National Coastal Mapping Program

    Data.gov (United States)

    Army Corps of Engineers, Department of the Army, Department of Defense — The U. S. Army Corps of Engineers (USACE) National Coastal Mapping Program (NCMP) is designed to provide high-resolution elevation and imagery data along U.S....

  10. Marketplace Enrollment Maps

    Data.gov (United States)

    U.S. Department of Health & Human Services — The maps show the distribution of consumers in a state who enrolled in marketplace plans through federally facilitated, partnership, and supported state-based...

  11. Public Waters Inventory Maps

    Data.gov (United States)

    Minnesota Department of Natural Resources — This theme is a scanned and rectified version of the Minnesota DNR - Division of Waters "Public Waters Inventory" (PWI) maps. DNR Waters utilizes a small scale...

  12. Complete Quasiconvex Mappings in Polydisc

    Institute of Scientific and Technical Information of China (English)

    LIU Tai-shun; ZHANG Wen-jun

    2006-01-01

    In this paper,a class of biholomorphic mappings called complete quasiconvex mappings is introduced and studied in bounded convex Reinhardt domains of Cn.Through a detailed analysis of the analytic characterization for this class of mappings,it is shown that this class of mappings contains the convex mappings and is also a subset of the class of starlike mappings.In the special case of the polydisc,a decomposition theorem is established for the complete quasiconvex mappings,which in turn is used to derive an improved sufficient condition for the convex mappings.

  13. Random mapping statistics

    OpenAIRE

    Flajolet, Philippe; Odlyzko, Andrew M.

    1989-01-01

    Random mappings from a finite set into itself are either a heuristic or an exact model for a variety of applications in random number generation, computational number theory, cryptography, and the analysis of algorithms at large. This paper introduces a general framework in which the analysis of about twenty characteristic parameters of random mappings is carried out. These parameters are studied systematically through the use of generating functions and singularity analysis. In particular, a...

  14. Sri Lanka Malaria Maps

    OpenAIRE

    Hoek Wim; Gunawardena Dissanayake M; Briët Olivier JT; Amerasinghe Felix P

    2003-01-01

    Abstract Background Despite a relatively good national case reporting system in Sri Lanka, detailed maps of malaria distribution have not been publicly available. Methods In this study, monthly records over the period 1995 – 2000 of microscopically confirmed malaria parasite positive blood film readings, at sub-district spatial resolution, were used to produce maps of malaria distribution across the island. Also, annual malaria trends at district resolution were displayed for the period 1995 ...

  15. Olympic Maps Available

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    Beijing is publishing a set of Olympic maps covering everything from the location of sporting venues to the city’s history As soon as Zhou Liyi hopped off the train from Shanghai to Beijing, he hurried to Wangfujing Xinhua Book Store,one of the largest of its kind in Beijing,to buy an Olympic map. Zhou is a Shanghai resident who came to Beijing on business and plans to return as a

  16. Ogallala Aquifer Mapping Program

    International Nuclear Information System (INIS)

    A computerized data file has been established which can be used efficiently by the contour-plotting program SURFACE II to produce maps of the Ogallala aquifer in 17 counties of the Texas Panhandle. The data collected have been evaluated and compiled into three sets, from which SURFACE II can generate maps of well control, aquifer thickness, saturated thickness, water level, and the difference between virgin (pre-1942) and recent (1979 to 1981) water levels. 29 figures, 1 table

  17. Irreversible quantum baker map.

    Science.gov (United States)

    Łoziński, Artur; Pakoński, Prot; Zyczkowski, Karol

    2002-12-01

    We propose a generalization of the model of classical baker map on the torus, in which the images of two parts of the phase space do overlap. This transformation is irreversible and cannot be quantized by means of a unitary Floquet operator. A corresponding quantum system is constructed as a completely positive map acting in the space of density matrices. We investigate spectral properties of this superoperator and their link with the increase of the entropy of initially pure states.

  18. Irreversible Quantum Baker Map

    CERN Document Server

    Lozinski, A; Zyczkowski, K; Lozinski, Artur; Pakonski, Prot; Zyczkowski, Karol

    2002-01-01

    We propose a generalization of the model of classical baker map on the torus, in which the images of two parts of the phase space do overlap. This transformation is irreversible and cannot be quantized by means of a unitary Floquet operator. A corresponding quantum system is constructed as a completely positive map acting in the space of density matrices. We investigate spectral properties of this super-operator and their link with the increase of the entropy of initially pure states.

  19. Maps of Computer Science

    CERN Document Server

    Fried, Daniel

    2013-01-01

    We describe a practical approach for visual exploration of research papers. Specifically, we use the titles of papers from the DBLP database to create what we call maps of computer science (MoCS). Words and phrases from the paper titles are the cities in the map, and countries are created based on word and phrase similarity, calculated using co-occurrence. With the help of heatmaps, we can visualize the profile of a particular conference or journal over the base map. Similarly, heatmap profiles can be made of individual researchers or groups such as a department. The visualization system also makes it possible to change the data used to generate the base map. For example, a specific journal or conference can be used to generate the base map and then the heatmap overlays can be used to show the evolution of research topics in the field over the years. As before, individual researchers or research groups profiles can be visualized using heatmap overlays but this time over the journal or conference base map. Fin...

  20. Interactive Metro Map Editing.

    Science.gov (United States)

    Wang, Yu-Shuen; Peng, Wan-Yu

    2016-02-01

    Manual editing of a metro map is essential because many aesthetic and readability demands in map generation cannot be achieved by using a fully automatic method. In addition, a metro map should be updated when new metro lines are developed in a city. Considering that manually designing a metro map is time-consuming and requires expert skills, we present an interactive editing system that considers human knowledge and adjusts the layout to make it consistent with user expectations. In other words, only a few stations are controlled and the remaining stations are relocated by our system. Our system supports both curvilinear and octilinear layouts when creating metro maps. It solves an optimization problem, in which even spaces, route straightness, and maximum included angles at junctions are considered to obtain a curvilinear result. The system then rotates each edge to extend either vertically, horizontally, or diagonally while approximating the station positions provided by users to generate an octilinear layout. Experimental results, quantitative and qualitative evaluations, and user studies show that our editing system is easy to use and allows even non-professionals to design a metro map.

  1. Genetic mapping of the dentinogenesis imperfecta type II locus

    Energy Technology Data Exchange (ETDEWEB)

    Crosby, A.H.; Dixon, M.J. [Univ. of Manchester (United Kingdom); Scherpbier-Heddema, T. [Fox Chase Cancer Center, Philadelphia, PA (United States)] [and others

    1995-10-01

    Dentinogenesis imperfecta type II (DGI-II) is an autosomal dominant disorder of dentin formation, which has previously been mapped to chromosome 4q12-21. In the current study, six novel short tandem-repeat polymorphisms (STRPs) have been isolated, five of which show significant evidence of linkage to DGI-II. To determine the order of the STRPs and define the genetic distance between them, nine loci (including polymorphisms for two known genes) were mapped through the CEPH reference pedigrees. The resulting genetic map encompasses 16.3 cM on the sex-averaged map. To combine this map with a physical map of the region, all of the STRPs were mapped through a somatic cell hybrid panel. The most likely location for the DGI-II locus within the fixed marker map is in the D4S2691-D4S2692 interval of 6.6 cM. The presence of a marker that shows no recombination with the DGI-II phenotype between the flanking markers provides an important anchor point for the creation of physical continuity across the DGI-II candidate region. 38 refs., 4 figs., 2 tabs.

  2. Plasma physics

    CERN Document Server

    Cairns, R A

    1985-01-01

    This book is intended as an introduction to plasma physics at a level suitable for advanced undergraduates or beginning postgraduate students in physics, applied mathematics or astrophysics. The main prerequisite is a knowledge of electromagnetism and of the associated mathematics of vector calculus. SI units are used throughout. There is still a tendency amongst some plasma physics researchers to· cling to C.g.S. units, but it is the author's view that universal adoption of SI units, which have been the internationally agreed standard since 1960, is to be encouraged. After a short introductory chapter, the basic properties of a plasma con­ cerning particle orbits, fluid theory, Coulomb collisions and waves are set out in Chapters 2-5, with illustrations drawn from problems in nuclear fusion research and space physics. The emphasis is on the essential physics involved and (he theoretical and mathematical approach has been kept as simple and intuitive as possible. An attempt has been made to draw attention t...

  3. Mapping Nursing language terms of Parkinson's disease

    Directory of Open Access Journals (Sweden)

    Michelle Hyczy de Siqueira Tosin

    2015-06-01

    Full Text Available OBJECTIVE Implementing cross-mapping of Nursing language terms with the terminology of NANDA International, contained in records of patients with Parkinson's disease in rehabilitation. METHOD Descriptive study of cross mapping, carried out in three steps. A simple random sample of 67 files of patients who participated in the rehabilitation in the period between March 2009 and April 2013. RESULTS We identified 454 terms of Nursing language that resulted in 54 diagnoses after cross-mapping, present in 11 of the 13 taxonomy domains. The most mapped diagnosis was "Impaired urinary elimination" (59.7%, followed by "Urgent urinary incontinence" (55.2%, "Willingness to self-control improved health" (50.7%, "Constipation" (47.8% and "Compromised physical mobility" (29.9%. Seven described terms were not mapped due to a corresponding defining characteristic being absent. CONCLUSION It was possible to determine the profile of patients, as well as the complexity of nursing care in the rehabilitation of patients with Parkinson's disease.

  4. SYSTEM FOR AUTOMATIC GENERALIZATION OF TOPOGRAPHIC MAPS

    Institute of Scientific and Technical Information of China (English)

    YAN Hao-wen; LI Zhi-lin; AI Ting-hua

    2006-01-01

    With the construction of spatial data infrastructure, automated topographic map generalization becomes an indispensable component in the community of cartography and geographic information science. This paper describes a topographic map generalization system recently developed by the authors. The system has the following characteristics: 1) taking advantage of three levels of automation, i.e. fully automated generalization, batch generalization,and interactive generalization, to undertake two types of processes, i.e. intelligent inference process and repetitive operation process in generalization; 2) making use of two kinds of sources for generalizing rule library, i.e. written specifications and cartographers' experiences, to define a six-element structure to describe the rules; 3) employing a hierarchical structure for map databases, logically and physically; 4) employing a grid indexing technique and undo/redo operation to improve database retrieval and object generalization efficiency. Two examples of topographic map generalization are given to demonstrate the system. It reveals that the system works well. In fact, this system has been used for a number of projects and it has been found that a great improvement in efficiency compared with traditional map generalization process can be achieved.

  5. Symmetric Quartic Map in natural canonical coordinates

    Science.gov (United States)

    Baldwin, Danielle; Jones, Bilal; Settle, Talise; Ali, Halima; Punjabi, Alkesh

    2015-11-01

    The generating function for the simple map is modified by replacing the cubic term in canonical momentum by a quartic term. New parameters are introduced in the modified generating function to control the height and the width of ideal separatrix surface and the poloidal magnetic flux inside ideal separatrix. The new generating function is the generating function for the Symmetric Quartic Map (SQM). The new parameters in the generating function are chosen such that the height, width, elongation, and the poloidal flux inside the separatrix for the SQM are same as the simple map. The resulting generating function for the SQM is then transformed from the physical coordinates to the natural canonical coordinates. The equilibrium separatrix of the SQM is calculated in the natural canonical coordinates. The purpose of this research is to calculate the homoclinic tangle of the SQM and compare with the simple map. The separatrix of the simple map is open and unbounded; while the separatrix of the SQM is closed and compact. Motivation is to see what role the topology of the separatrix plays in its homoclinic tangle in single-null divertor tokamaks. This work is supported by grants DE-FG02-01ER54624, DE-FG02-04ER54793, and DE-FG02-07ER54937.

  6. Mapping genes on human chromosome 20

    Energy Technology Data Exchange (ETDEWEB)

    Keith, T.; Phipps, P.; Serino, K. [Collaborative Research, Inc., Waltham, MA (United States)] [and others

    1994-09-01

    While a substantial number of genes have been physically localized to human chromosome 20, few have been genetically mapped. In the process of developing a genetic linkage map of chromosome 20, we have mapped microsatellite polymorphisms associated with six genes. Three of these had highly informative polymorphisms (greater than 0.70) that were originally identified by other investigators. These include avian sarcoma oncogene homolog (SRC), ribophorin II (RPN2), and phosphoenolpyruvate carboxykinase (PCK1). Polymorphisms associated with two genes were determined following a screen of their DNA sequences in GenBank. These include dinucleotide polymorphisms in introl II of cystatin c (CST3) and in the promoter region of neuroendocrine convertase 2 (NEC2) with heterozygosities of 0.52 and 0.54, respectively. A sixth gene, prodynorphin (PDYN) was mapped following the identification of a dinucleotide repeat polymorphism (heterozygosity of 0.35) in a cosmid subclone from a YAC homologous to the original phage clone. CA-positive cosmid subclones from a YAC for an additional gene, guanine nucleotide binding protein, alpha (GNAS10), have been identified and sequencing is in progress. Similar efforts were utilized to identify a microsatellite polymorphism from a half-YAC cloned by W. Brown and localized by FISH to 20pter. This polymorphism is highly informative, with a heterozygosity of 0.83, and serves to delimit the genetic map of the short arm of this chromosome.

  7. Development of base maps' role in soil mapping

    Science.gov (United States)

    Miller, Brad; Brevik, Eric

    2014-05-01

    One of the ultimate goals of soil science is the production of accurate soil maps, but historically these thematic maps have relied upon base maps for positional reference and later for parameters that help predict soil properties. This presentation reviews the history of base maps and the dependence of soil mapping on them. The availability of geographic technology for producing these base maps has constrained and directed the geographic study of soil. A lack of accurate methods for determining location limited early geographic description of soils to narratives. The availability of accurate topographic maps in the late 18th century, fueled by governments' interests in documenting national boundaries and popular interest in world atlases, provided the first base maps for soil geographers. These soil maps primarily used the topographic maps as a spatial reference onto which the thematic details were drawn. Due to the late start of a systematic topographic survey in the United States, early Soil Survey maps depended upon plat maps for spatial reference. The adoption of aerial photographs in the process of soil mapping increased the role of base maps as predictive parameters. In the current geospatial revolution, global positioning systems and geographic information systems have nearly replaced the need for base maps to provide spatial reference. Today, base maps are more likely to be used as parameters in landscape models for predicting the spatial distribution of soil properties and classes. As model parameters for digital soil maps, base maps constitute the library of predictive variables and constrain the supported resolution of the soil map. This change in the relationship between base maps and the soil map is a paradigm shift that affects fundamental definitions of geography, such as scale, resolution, and detectable features. These concepts are the essential tools used to study the spatial characteristics of Earth Systems.

  8. Geologic mapping of Vesta

    Science.gov (United States)

    Yingst, R. A.; Mest, S. C.; Berman, D. C.; Garry, W. B.; Williams, D. A.; Buczkowski, D.; Jaumann, R.; Pieters, C. M.; De Sanctis, M. C.; Frigeri, A.; Le Corre, L.; Preusker, F.; Raymond, C. A.; Reddy, V.; Russell, C. T.; Roatsch, T.; Schenk, P. M.

    2014-11-01

    We report on a preliminary global geologic map of Vesta, based on data from the Dawn spacecraft's High-Altitude Mapping Orbit (HAMO) and informed by Low-Altitude Mapping Orbit (LAMO) data. This map is part of an iterative mapping effort; the geologic map has been refined with each improvement in resolution. Vesta has a heavily-cratered surface, with large craters evident in numerous locations. The south pole is dominated by an impact structure identified before Dawn's arrival. Two large impact structures have been resolved: the younger, larger Rheasilvia structure, and the older, more degraded Veneneia structure. The surface is also characterized by a system of deep, globe-girdling equatorial troughs and ridges, as well as an older system of troughs and ridges to the north. Troughs and ridges are also evident cutting across, and spiraling arcuately from, the Rheasilvia central mound. However, no volcanic features have been unequivocally identified. Vesta can be divided very broadly into three terrains: heavily-cratered terrain; ridge-and-trough terrain (equatorial and northern); and terrain associated with the Rheasilvia crater. Localized features include bright and dark material and ejecta (some defined specifically by color); lobate deposits; and mass-wasting materials. No obvious volcanic features are evident. Stratigraphy of Vesta's geologic units suggests a history in which formation of a primary crust was followed by the formation of impact craters, including Veneneia and the associated Saturnalia Fossae unit. Formation of Rheasilvia followed, along with associated structural deformation that shaped the Divalia Fossae ridge-and-trough unit at the equator. Subsequent impacts and mass wasting events subdued impact craters, rims and portions of ridge-and-trough sets, and formed slumps and landslides, especially within crater floors and along crater rims and scarps. Subsequent to the formation of Rheasilvia, discontinuous low-albedo deposits formed or were

  9. Conformal mappings and CR mappings on the Engel group

    Institute of Scientific and Technical Information of China (English)

    2009-01-01

    We show that conformal mappings between the Engel groups are CR or anti-CR mappings. This reduces the determination of conformal mappings to a problem in the theory of several complex analysis.The result about the group of CR automorphisms is used to determine the identity component of the group of conformal mappings on the Engel group.

  10. Neoclassical physics

    CERN Document Server

    Cunningham, Mark A

    2015-01-01

    In this introductory text, physics concepts are introduced as a means of understanding experimental observations, not as a sequential list of facts to be memorized. The book is structured around the key scientific discoveries that led to much of our current understanding of the universe. Numerous exercises are provided that utilize Mathematica software to help students explore how the language of mathematics is used to describe physical phenomena. Topics requiring quantum mechanics for a more complete explanation are identified but not pursued. In a departure from the traditional methodology and subject matter used in introductory physics texts, this is organized in a manner that will facilitate a guided discovery style of instruction. Students will obtain much more detailed information about fewer topics and will also gain proficiency with Mathematica, a powerful tool with many potential uses in subsequent courses.

  11. Mathematical physics

    CERN Document Server

    Geroch, Robert

    1900-01-01

    Mathematical Physics is an introduction to such basic mathematical structures as groups, vector spaces, topological spaces, measure spaces, and Hilbert space. Geroch uses category theory to emphasize both the interrelationships among different structures and the unity of mathematics. Perhaps the most valuable feature of the book is the illuminating intuitive discussion of the ""whys"" of proofs and of axioms and definitions. This book, based on Geroch's University of Chicago course, will be especially helpful to those working in theoretical physics, including such areas as relativity, particle

  12. Molecular physics

    CERN Document Server

    Demtröder, Wolfgang

    2008-01-01

    The richly illustrated book comprehensively explains the important principles of diatomic and polyatomic molecules and their spectra in two separate, distinct parts. The first part concentrates on the theoretical aspects of molecular physics, such as the vibration, rotation, electronic states, potential curves, and spectra of molecules. The different methods of approximation for the calculation of electronic wave functions and their energy are also covered. The introduction of basics terms used in group theory and their meaning in molecular physics enables an elegant description of polyatomic

  13. Subjective physics

    OpenAIRE

    Brette, Romain

    2013-01-01

    Imagine a naive organism who does not know anything about the world. It can capture signals through its sensors and it can make actions. What kind of knowledge about the world is accessible to the organism? This situation is analog to that of a physicist trying to understand the world through observations and experiments. In the same way as physics describes the laws of the world obtained in this way by the scientist, I propose to name subjective physics the description of the laws that gover...

  14. Theoretical physics

    International Nuclear Information System (INIS)

    The 1988 progress report of the theoretical Physics Center (Ecole Polytechnique, France), is presented. The research activities are carried out in the fields of the supersymmetry theory, the dynamic systems theory, the statistical mechanics, the plasma physics and the random media. Substantial improvements are obtained on dynamical system investigations. In the field theory, the definition of the Gross-Neveu model is achieved. However the construction of the non-abelian gauge theories and the conformal theories are the main research activities. Concerning Astrophysics, a three-dimensional gravitational code is obtained. The activities of each team, and the list of the published papers, congress communications and thesis are given

  15. Insurance flood maps

    International Nuclear Information System (INIS)

    Dear Client, in half an hour you will be hit by a flood, please get ready. Your insurance company. Such a phone call or SMS could only mean two things: drunk friends or an insurance company using a flood map. In the second case, the best thing to do on receiving such a message is to act quickly. The advantage of flood maps do not necessarily have to start at the moment a flood becomes an immediate threat. The primary role of flood maps is to allow for a fairer calculation of insurance rates. Insurance companies can save on re-insurance costs as if the risk level is predictable re-insurance companies may offer better rates. The three largest insurance companies: Allianz - Slovenska poistovna, Kooperativa and Ceska poistovna Slovensko have begun introducing flood maps. These three companies control about 75% of the market. And if competition does not force other market participants to adopt the same approach, re-insurance companies certainly will. They will charge more for a less specifically defined risk level. So far insurance companies have not encountered this pressure, re-insurance companies are helping them set up the flood maps and in the coming years flood maps will become a common tool. Then the pressure will be there: if a insurance company uses a different calculation method, the final price may differ greatly from the competition's. If the price is higher, the company will lose clients and if the price is much lower, the risk has probably not been calculated correctly and the insurance company may suffer substantial losses in the event of a major flood. In short, the investment of several million Sk in a flood map is essential

  16. The structure of states and maps in quantum theory

    Indian Academy of Sciences (India)

    Sudhavathani Simon; S P Rajagopalan; R Simon

    2009-09-01

    The structure of statistical state spaces in the classical and quantum theories are compared in an interesting and novel manner. Quantum state spaces and maps on them have rich convex structures arising from the superposition principle and consequent entanglement. Communication channels (physical processes) in the quantum scheme of things are in one-to-one correspondence with completely positive maps. Positive maps which are not completely positive do not correspond to physical processes. Nevertheless they prove to be invaluable mathematical tools in establishing or witnessing entanglement of mixed states. We consider some of the recent developments in our understanding of the convex structure of states and maps in quantum theory, particularly in the context of quantum information theory.

  17. Physics News

    CERN Multimedia

    Gianotti, F.

    In spite of the fact that real data will only come in the year 2006, this is a very busy and interesting time for Physics-related activities. A very short overview of these activities is given in this issue of the ATLAS News Letter, while the various topics will be described in more detail in the next issues. The Physics and Combined Performance groups are working in four main areas: 1) Assess the ATLAS potential for physics, with emphasis on new channels and ideas. Recent examples are Extra-dimensions, invisible Higgs decays, heavy ion physics, the expected potential of a "Super-LHC" running at a luminosity of 10^35, etc.. 2) Improve the understanding of the detector performance and optimise the reconstruction algorithms. Examples of issues in the pipeline are: can we tag charm-jet ? What can we gain in the jet energy resolution by combining the calorimeter and tracker information to reconstruct the jet energy ? 3) Follow detector changes and detector-related issues and monitor the impact on the perform...

  18. Atomic physics

    CERN Document Server

    Born, Max

    1989-01-01

    The Nobel Laureate's brilliant exposition of the kinetic theory of gases, elementary particles, the nuclear atom, wave-corpuscles, atomic structure and spectral lines, electron spin and Pauli's principle, quantum statistics, molecular structure and nuclear physics. Over 40 appendices, a bibliography, numerous figures and graphs.

  19. Motorcycle Physics.

    Science.gov (United States)

    Engel, Chuck; Girard, Barbara

    1983-01-01

    At the end of a secondary school science study of mechanics, a summary lab uses a motorcycle to provide students with the chance to apply some of the concepts they have studied. Exercises from this motorcycle physics lab are discussed. (Author/JN)

  20. Fundamental Physics

    CERN Document Server

    Ydri, Badis

    2016-01-01

    This book includes my lectures, together with their problem sets and solutions, on 1) classical mechanics (one semester), 2) thermodynamics and statistical mechanics (one semester), and 3) quantum mechanics (one semester), which I have been giving to graduate students of theoretical physics at Annaba University since 2010 .