A physical map, including a BAC/PAC clone contig, of the Williams-Beuren syndrome--deletion region at 7q11.23.

PubMed

Peoples, R; Franke, Y; Wang, Y K; Pérez-Jurado, L; Paperna, T; Cisco, M; Francke, U

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 a physical map of the WBS deletion and flanking regions, based on assembly of a bacterial artificial chromosome/P1-derived artificial chromosome contig, analysis of high-throughput genome-sequence data, and long-range restriction mapping of genomic and cloned DNA by pulsed-field gel electrophoresis. Our map encompasses 3 Mb, including 1.6 Mb within the deletion. Two large duplicons, flanking the deletion, of >/=320 kb contain unique sequence elements from the internal border regions of the deletion, such as sequences from GTF2I (telomeric) and FKBP6 (centromeric). A third copy of this duplicon exists in inverted orientation distal to the telomeric flanking one. These duplicons show stronger sequence conservation with regard to each other than to the presumptive ancestral loci within the common deletion region. Sequence elements originating from beyond 7q11.23 are also present in these duplicons. Although the duplicons are not present in mice, the order of the single-copy genes in the conserved syntenic region of mouse chromosome 5 is inverted relative to the human map. A model is presented for a mechanism of WBS-deletion formation, based on the orientation of duplicons' components relative to each other and to the ancestral elements within the deletion region.

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

PubMed Central

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 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 ordering of genomic sequences of clone RH (and other potato genotypes), and opens the possibility to finish sequencing of the RH genome in a more efficient way via high throughput next generation approaches. PMID:22142254

Molecular mapping of chromosomes 17 and X

DOE Office of Scientific and Technical Information (OSTI.GOV)

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 ofmore » 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.« less

Molecular mapping of chromosomes 17 and X. Progress report

DOE Office of Scientific and Technical Information (OSTI.GOV)

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 ofmore » 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.« less

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

ERIC Educational Resources Information Center

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…

JPRS Report, Science & Technology. Europe: Economic Competitiveness

DTIC Science & Technology

1992-02-24

Health Systems This area covers the harmonisation of methodologies and protocols in epidemiological, biological , clinical and technological...substances and biological agents on human health; and the application and enhancement of biomedical tech- nology to medical health care. Major Health...Work will cover the completion and integration of the genetic and physical maps; the genetic basis for biolog - ical functions; and the setting up a

BAC-end sequence-based SNPs and Bin mapping for rapid integration of physical and genetic maps in apple.

PubMed

Han, Yuepeng; Chagné, David; Gasic, Ksenija; Rikkerink, Erik H A; Beever, Jonathan E; Gardiner, Susan E; Korban, Schuyler S

2009-03-01

A genome-wide BAC physical map of the apple, Malus x domestica Borkh., has been recently developed. Here, we report on integrating the physical and genetic maps of the apple using a SNP-based approach in conjunction with bin mapping. Briefly, BAC clones located at ends of BAC contigs were selected, and sequenced at both ends. The BAC end sequences (BESs) were used to identify candidate SNPs. Subsequently, these candidate SNPs were genetically mapped using a bin mapping strategy for the purpose of mapping the physical onto the genetic map. Using this approach, 52 (23%) out of 228 BESs tested were successfully exploited to develop SNPs. These SNPs anchored 51 contigs, spanning approximately 37 Mb in cumulative physical length, onto 14 linkage groups. The reliability of the integration of the physical and genetic maps using this SNP-based strategy is described, and the results confirm the feasibility of this approach to construct an integrated physical and genetic maps for apple.

A Digital Tectonic Activity Map of the Earth

NASA Technical Reports Server (NTRS)

Lowman, Paul; Masuoka, Penny; Montgomery, Brian; OLeary, Jay; Salisbury, Demetra; Yates, Jacob

1999-01-01

The subject of neotectonics, covering the structures and structural activity of the last 5 million years (i.e., post-Miocene) is a well-recognized field, including "active tectonics," focussed on the last 500,000 years in a 1986 National Research Council report of that title. However, there is a cartographic gap between tectonic maps, generally showing all features regardless of age, and maps of current seismic or volcanic activity. We have compiled a map intended to bridge this gap, using modern data bases and computer-aided cartographic techniques. The maps presented here are conceptually descended from an earlier map showing tectonic and volcanic activity of the last one million years. Drawn by hand with the National Geographic Society's 1975 "The Physical World" map as a base, the 1981 map in various revisions has been widely reproduced in textbooks and various technical publications. However, two decades of progress call for a completely new map that can take advantage of new knowledge and cartographic techniques. The digital tectonic activity map (DTM), presented in shaded relief (Fig. 1) and schematic (Fig. 2) versions, is the result. The DTM is intended to show tectonism and volcanism of the last one million years, a period long enough to be representative of global activity, but short enough that features such as fault scarps and volcanos are still geomorphically recognizable. Data Sources and Cartographic Methods The DTM is based on a wide range of sources, summarized in Table 1. The most important is the digital elevation model, used to construct a shaded relief map. The bathymetry is largely from satellite altimetry, specifically the marine gravity compilations by Smith and Sandwell (1996). The shaded relief map was designed to match the new National Geographic Society world physical map (1992), although drawn independently, from the digital elevation model. The Robinson Projection is used instead of the earlier Van der Grinten one. Although neither conformal nor equal-area, the Robinson Projection provides a reasonable compromise and retains useful detail at high latitudes.

Molecular cloning and physical mapping of the genome of fish lymphocystis disease virus.

PubMed

Darai, G; Delius, H; Clarke, J; Apfel, H; Schnitzler, P; Flügel, R M

1985-10-30

A defined and complete gene library of the fish lymphocystis disease virus (FLDV) genome was established. FLDV DNA was cleaved with EcoRI, BamHI, EcoRI/BamHI and EcoRI/HindIII and the resulting fragments were inserted into the corresponding sites of the pACYC184 or pAT153 plasmid vectors using T4 DNA ligase. Since FLDV DNA is highly methylated at CpG sequences (Darai et al., 1983; Wagner et al., 1985), an Escherichia coli GC-3 strain was required to amplify the recombinant plasmids harboring the FLDV DNA fragments. Bacterial colonies harboring recombinant plasmids were selected. All cloned fragments were individually identified by digestion of the recombinant plasmid DNA with different restriction enzymes and screened by hybridization of recombinant plasmid DNA to viral DNA. This analysis revealed that sequences representing 100% of the viral genome were cloned. Using these recombinant plasmids, the physical maps of the genome were constructed for BamHI, EcoRI, BestEII, and PstI restriction endonucleases. Although the FLDV genome is linear, due to circular permutation the restriction maps are circular.

Fundamentals of Structural Geology

NASA Astrophysics Data System (ADS)

Pollard, David D.; Fletcher, Raymond C.

2005-09-01

Fundamentals of Structural Geology provides a new framework for the investigation of geological structures by integrating field mapping and mechanical analysis. Assuming a basic knowledge of physical geology, introductory calculus and physics, it emphasizes the observational data, modern mapping technology, principles of continuum mechanics, and the mathematical and computational skills, necessary to quantitatively map, describe, model, and explain deformation in Earth's lithosphere. By starting from the fundamental conservation laws of mass and momentum, the constitutive laws of material behavior, and the kinematic relationships for strain and rate of deformation, the authors demonstrate the relevance of solid and fluid mechanics to structural geology. This book offers a modern quantitative approach to structural geology for advanced students and researchers in structural geology and tectonics. It is supported by a website hosting images from the book, additional colour images, student exercises and MATLAB scripts. Solutions to the exercises are available to instructors. The book integrates field mapping using modern technology with the analysis of structures based on a complete mechanics MATLAB is used to visualize physical fields and analytical results and MATLAB scripts can be downloaded from the website to recreate textbook graphics and enable students to explore their choice of parameters and boundary conditions The supplementary website hosts color images of outcrop photographs used in the text, supplementary color images, and images of textbook figures for classroom presentations The textbook website also includes student exercises designed to instill the fundamental relationships, and to encourage the visualization of the evolution of geological structures; solutions are available to instructors

A complete YAC contig of the Prader-Willi/Angelman chromosome region (15q11-q13) and refined localization of the SNRPN gene

DOE Office of Scientific and Technical Information (OSTI.GOV)

Mutirangura, A.; Jayakumar, A.; Sutcliffe, J.S.

1993-12-01

Since a previous report of a partial YAC contig of the Prader-Willi/Angelman chromosome region (15q11-q13), a complete contig spanning approximately 3.5 Mb has been developed. YACs were isolated from two human genomic libraries by PCR and hybridization screening methods. Twenty-three sequence-tagged sites (STSs) were mapped within the contig, a density of [approximately]1 per 200 kb. Overlaps between YAC clones were identified by Alu-PCR dot-blot analysis and confirmed by STS mapping or hybridization with ends of YAC inserts. The gene encoding small nuclear ribonucleoprotein-associated peptide N (SNRPN), recently identified as a candidate gene for Prader-Willi syndrome, was localized within this contigmore » between markers PW71 and TD3-21. Loci mapped within and immediately flanking the Prader-Willi/Angelman chromosome region contig are ordered as follows: cen-IR39-ML34-IR4-3R-TD189-1-PW71-SNRPN-TD3-21-LS6-1-GABRB3,D15S97-GABRA5-IR10-1-CMW1-tel. This YAC contig will be a useful resource for more detailed physical mapping of the region, for generation of new DNA markers, and for mapping or cloning candidate genes for the Prader-Willi and Angelman syndromes. 36 refs., 2 figs., 2 tabs.« less

A 1,681-locus consensus genetic map of cultivated cucumber including 67 NB-LRR resistance gene homolog and ten gene loci

PubMed Central

2013-01-01

Background Cucumber is an important vegetable crop that is susceptible to many pathogens, but no disease resistance (R) genes have been cloned. The availability of whole genome sequences provides an excellent opportunity for systematic identification and characterization of the nucleotide binding and leucine-rich repeat (NB-LRR) type R gene homolog (RGH) sequences in the genome. Cucumber has a very narrow genetic base making it difficult to construct high-density genetic maps. Development of a consensus map by synthesizing information from multiple segregating populations is a method of choice to increase marker density. As such, the objectives of the present study were to identify and characterize NB-LRR type RGHs, and to develop a high-density, integrated cucumber genetic-physical map anchored with RGH loci. Results From the Gy14 draft genome, 70 NB-containing RGHs were identified and characterized. Most RGHs were in clusters with uneven distribution across seven chromosomes. In silico analysis indicated that all 70 RGHs had EST support for gene expression. Phylogenetic analysis classified 58 RGHs into two clades: CNL and TNL. Comparative analysis revealed high-degree sequence homology and synteny in chromosomal locations of these RGH members between the cucumber and melon genomes. Fifty-four molecular markers were developed to delimit 67 of the 70 RGHs, which were integrated into a genetic map through linkage analysis. A 1,681-locus cucumber consensus map including 10 gene loci and spanning 730.0 cM in seven linkage groups was developed by integrating three component maps with a bin-mapping strategy. Physically, 308 scaffolds with 193.2 Mbp total DNA sequences were anchored onto this consensus map that covered 52.6% of the 367 Mbp cucumber genome. Conclusions Cucumber contains relatively few NB-LRR RGHs that are clustered and unevenly distributed in the genome. All RGHs seem to be transcribed and shared significant sequence homology and synteny with the melon genome suggesting conservation of these RGHs in the Cucumis lineage. The 1,681-locus consensus genetic-physical map developed and the RGHs identified and characterized herein are valuable genomics resources that may have many applications such as quantitative trait loci identification, map-based gene cloning, association mapping, marker-assisted selection, as well as assembly of a more complete cucumber genome. PMID:23531125

Organization and differential regulation of a cluster of lignin peroxidase genes of Phanerochaete chrysosporium

Treesearch

Philip Stewart; Daniel Cullen

1999-06-01

The lignin peroxidases of Phanerochaete chrysosporium are encoded by a minimum of 10 closely related genes. Physical and genetic mapping of a cluster of eight lip genes revealed six genes occurring in pairs and transcriptionally convergent, suggesting that portions of the lip family arose by gene duplication events. The completed sequence of 1ipG and lipJ, together...

Global dynamics and diffusion in triaxial galactic models

NASA Astrophysics Data System (ADS)

Papaphilippou, Y.

We apply the Frequency Map Analysis method to the 3--dimensional logarithmic galactic potential in order to clarify the dynamical behaviour of triaxial power--law galactic models. All the fine dynamical details are displayed in the complete frequency map, a direct representation of the system's Arnol'd web. The influence of resonant lines and the extent of the chaotic zones are directly associated with the physical space of the system. Some new results related with the diffusion of galactic orbits are also discussed. This approach reveals many unknown dynamical features of triaxial galactic potentials and provides strong indications that chaos should be an innate characteristic of triaxial configurations.

A complete catalog of stellar mass maps for PHANGS

NASA Astrophysics Data System (ADS)

Munoz-Mateos, Juan-Carlos; Querejeta, Miguel; Schinnerer, Eva; Leroy, Adam; Sun, Jiayi; Blanc, Guillermo; Kruijssen, Diederik; Emsellem, Eric; Bigiel, Frank

2018-05-01

We request IRAC 3.6 and 4.5 um imaging of four galaxies that have been mapped in molecular gas by ALMA as part of its first large program targeting nearby galaxies (PHANGS: Physics at High Angular resolution in Nearby GalaxieS). IRAC provides a uniquely robust view of the stellar mass distribution, which in turn plays a key role in regulating the properties and behavior of the molecular gas. These are the only targets of our ALMA large program without such imaging. A modest investment of Spitzer time will allow us to measure the drivers of molecular cloud and star formation in these targets.

Relationship of nutrition and physical activity behaviors and fitness measures to academic performance for sixth graders in a midwest city school district.

PubMed

Edwards, Jane U; Mauch, Lois; Winkelman, Mark R

2011-02-01

To support curriculum and policy, a midwest city school district assessed the association of selected categories of nutrition and physical activity (NUTR/PA) behaviors, fitness measures, and body mass index (BMI) with academic performance (AP) for 800 sixth graders. Students completed an adapted Youth Risk Behavior Surveillance Survey (NUTR/PA behaviors), fitness assessments (mile run, curl-ups, push-ups, height, and weight) with results matched to standardized scores (Measures of Academic Progress [MAP]), meal price status, and gender. Differences in mean MAP scores (math and reading) were compared by selected categories of each variable utilizing 1-way analysis of variance. Associations were determined by stepwise multiple regression utilizing mean MAP scores (for math and for reading) as the dependent variable and NUTR/PA behaviors, fitness, and BMI categories as independent variables. Significance was set at α = 0.05. Higher MAP math scores were associated with NUTR (more milk and breakfast; less 100% fruit juice and sweetened beverages [SB]) and PA (increased vigorous PA and sports teams; reduced television), and fitness (higher mile run performance). Higher MAP reading scores were associated with NUTR (fewer SB) and PA (increased vigorous PA, reduced television). Regression analysis indicated about 11.1% of the variation in the mean MAP math scores and 6.7% of the mean MAP reading scores could be accounted for by selected NUTR/PA behaviors, fitness, meal price status, and gender. Many positive NUTR/PA behaviors and fitness measures were associated with higher MAP scores supporting the school district focus on healthy lifestyles. Additional factors, including meal price status and gender, contribute to AP. © 2011, Fargo Public School.

MAP training: combining meditation and aerobic exercise reduces depression and rumination while enhancing synchronized brain activity

PubMed Central

Alderman, B L; Olson, R L; Brush, C J; Shors, T J

2016-01-01

Mental and physical (MAP) training is a novel clinical intervention that combines mental training through meditation and physical training through aerobic exercise. The intervention was translated from neuroscientific studies indicating that MAP training increases neurogenesis in the adult brain. Each session consisted of 30 min of focused-attention (FA) meditation and 30 min of moderate-intensity aerobic exercise. Fifty-two participants completed the 8-week intervention, which consisted of two sessions per week. Following the intervention, individuals with major depressive disorder (MDD; n=22) reported significantly less depressive symptoms and ruminative thoughts. Typical healthy individuals (n=30) also reported less depressive symptoms at follow-up. Behavioral and event-related potential indices of cognitive control were collected at baseline and follow-up during a modified flanker task. Following MAP training, N2 and P3 component amplitudes increased relative to baseline, especially among individuals with MDD. These data indicate enhanced neural responses during the detection and resolution of conflicting stimuli. Although previous research has supported the individual beneficial effects of aerobic exercise and meditation for depression, these findings indicate that a combination of the two may be particularly effective in increasing cognitive control processes and decreasing ruminative thought patterns. PMID:26836414

Large-scale De Novo Prediction of Physical Protein-Protein Association*

PubMed Central

Elefsinioti, Antigoni; Saraç, Ömer Sinan; Hegele, Anna; Plake, Conrad; Hubner, Nina C.; Poser, Ina; Sarov, Mihail; Hyman, Anthony; Mann, Matthias; Schroeder, Michael; Stelzl, Ulrich; Beyer, Andreas

2011-01-01

Information about the physical association of proteins is extensively used for studying cellular processes and disease mechanisms. However, complete experimental mapping of the human interactome will remain prohibitively difficult in the near future. Here we present a map of predicted human protein interactions that distinguishes functional association from physical binding. Our network classifies more than 5 million protein pairs predicting 94,009 new interactions with high confidence. We experimentally tested a subset of these predictions using yeast two-hybrid analysis and affinity purification followed by quantitative mass spectrometry. Thus we identified 462 new protein-protein interactions and confirmed the predictive power of the network. These independent experiments address potential issues of circular reasoning and are a distinctive feature of this work. Analysis of the physical interactome unravels subnetworks mediating between different functional and physical subunits of the cell. Finally, we demonstrate the utility of the network for the analysis of molecular mechanisms of complex diseases by applying it to genome-wide association studies of neurodegenerative diseases. This analysis provides new evidence implying TOMM40 as a factor involved in Alzheimer's disease. The network provides a high-quality resource for the analysis of genomic data sets and genetic association studies in particular. Our interactome is available via the hPRINT web server at: www.print-db.org. PMID:21836163

An Integrated Physical, Genetic and Cytogenetic Map of Brachypodium distachyon, a Model System for Grass Research

PubMed Central

Febrer, Melanie; Goicoechea, Jose Luis; Wright, Jonathan; McKenzie, Neil; Song, Xiang; Lin, Jinke; Collura, Kristi; Wissotski, Marina; Yu, Yeisoo; Ammiraju, Jetty S. S.; Wolny, Elzbieta; Idziak, Dominika; Betekhtin, Alexander; Kudrna, Dave; Hasterok, Robert; Wing, Rod A.; Bevan, Michael W.

2010-01-01

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 vaildation 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. PMID:20976139

Integration of hybridization-based markers (overgos) into physical maps for comparative and evolutionary explorations in the genus Oryza and in Sorghum

PubMed Central

Hass-Jacobus, Barbara L; Futrell-Griggs, Montona; Abernathy, Brian; Westerman, Rick; Goicoechea, Jose-Luis; Stein, Joshua; Klein, Patricia; Hurwitz, Bonnie; Zhou, Bin; Rakhshan, Fariborz; Sanyal, Abhijit; Gill, Navdeep; Lin, Jer-Young; Walling, Jason G; Luo, Mei Zhong; Ammiraju, Jetty Siva S; Kudrna, Dave; Kim, Hye Ran; Ware, Doreen; Wing, Rod A; Miguel, Phillip San; Jackson, Scott A

2006-01-01

Background With the completion of the genome sequence for rice (Oryza sativa L.), the focus of rice genomics research has shifted to the comparison of the rice genome with genomes of other species for gene cloning, breeding, and evolutionary studies. The genus Oryza includes 23 species that shared a common ancestor 8–10 million years ago making this an ideal model for investigations into the processes underlying domestication, as many of the Oryza species are still undergoing domestication. This study integrates high-throughput, hybridization-based markers with BAC end sequence and fingerprint data to construct physical maps of rice chromosome 1 orthologues in two wild Oryza species. Similar studies were undertaken in Sorghum bicolor, a species which diverged from cultivated rice 40–50 million years ago. Results Overgo markers, in conjunction with fingerprint and BAC end sequence data, were used to build sequence-ready BAC contigs for two wild Oryza species. The markers drove contig merges to construct physical maps syntenic to rice chromosome 1 in the wild species and provided evidence for at least one rearrangement on chromosome 1 of the O. sativa versus Oryza officinalis comparative map. When rice overgos were aligned to available S. bicolor sequence, 29% of the overgos aligned with three or fewer mismatches; of these, 41% gave positive hybridization signals. Overgo hybridization patterns supported colinearity of loci in regions of sorghum chromosome 3 and rice chromosome 1 and suggested that a possible genomic inversion occurred in this syntenic region in one of the two genomes after the divergence of S. bicolor and O. sativa. Conclusion The results of this study emphasize the importance of identifying conserved sequences in the reference sequence when designing overgo probes in order for those probes to hybridize successfully in distantly related species. As interspecific markers, overgos can be used successfully to construct physical maps in species which diverged less than 8 million years ago, and can be used in a more limited fashion to examine colinearity among species which diverged as much as 40 million years ago. Additionally, overgos are able to provide evidence of genomic rearrangements in comparative physical mapping studies. PMID:16895597

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

PubMed Central

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

2000-01-01

Summary 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 a physical map of the WBS deletion and flanking regions, based on assembly of a bacterial artificial chromosome/P1-derived artificial chromosome contig, analysis of high-throughput genome-sequence data, and long-range restriction mapping of genomic and cloned DNA by pulsed-field gel electrophoresis. Our map encompasses 3 Mb, including 1.6 Mb within the deletion. Two large duplicons, flanking the deletion, of ⩾320 kb contain unique sequence elements from the internal border regions of the deletion, such as sequences from GTF2I (telomeric) and FKBP6 (centromeric). A third copy of this duplicon exists in inverted orientation distal to the telomeric flanking one. These duplicons show stronger sequence conservation with regard to each other than to the presumptive ancestral loci within the common deletion region. Sequence elements originating from beyond 7q11.23 are also present in these duplicons. Although the duplicons are not present in mice, the order of the single-copy genes in the conserved syntenic region of mouse chromosome 5 is inverted relative to the human map. A model is presented for a mechanism of WBS-deletion formation, based on the orientation of duplicons' components relative to each other and to the ancestral elements within the deletion region. PMID:10631136

The Eagle Nebula: a spectral template for star forming regions

NASA Astrophysics Data System (ADS)

Flagey, Nicolas; Boulanger, Francois; Carey, Sean; Compiegne, Mathieu; Dwek, Eli; Habart, Emilie; Indebetouw, Remy; Montmerle, Thierry; Noriega-Crespo, Alberto

2008-03-01

IRAC and MIPS have revealed spectacular images of massive star forming regions in the Galaxy. These vivid illustrations of the interaction between the stars, through their winds and radiation, and their environment, made of gas and dust, still needs to be explained. The large scale picture of layered shells of gas components, is affected by the small scale interaction of stars with the clumpy medium that surrounds them. To understand spatial variations of physical conditions and dust properties on small scales, spectroscopic imaging observations are required on a nearby object. The iconic Eagle Nebula (M16) is one of the nearest and most observed star forming region of our Galaxy and as such, is a well suited template to obtain this missing data set. We thus propose a complete spectral map of the Eagle Nebula (M16) with the IRS/Long Low module (15-38 microns) and MIPS/SED mode (55-95 microns). Analysis of the dust emission, spectral features and continuum, and of the H2 and fine-structure gas lines within our models will provide us with constraints on the physical conditions (gas ionization state, pressure, radiation field) and dust properties (temperature, size distribution) at each position within the nebula. Only such a spatially and spectrally complete map will allow us to characterize small scale structure and dust evolution within the global context and understand the impact of small scale structure on the evolution of dusty star forming regions. This project takes advantage of the unique ability of IRS at obtaining sensitive spectral maps covering large areas.

Geologic Mapping of the Martian Impact Crater Tooting

NASA Technical Reports Server (NTRS)

Mouginis-Mark, Peter; Boyce, Joseph M.

2008-01-01

Tooting crater is approximately 29 km in diameters, is located at 23.4 deg N, 207.5 deg E and is classified as a multi-layered ejecta crater. Tooting crater is a very young crater, with an estimated age of 700,000 to 2M years. The crater formed on virtually flat lava flows within Amazonis Planitia where there appears to have been no major topographic features prior to the impact, so that we can measure ejecta thickness and cavity volume. In the past 12 months, the authors have: published their first detailed analysis of the geometry of the crater cavity and the distribution of the ejecta layers; refined the geologic map of the interior of Tooting crater through mapping of the cavity at a scale of 1:1100K; and continued the analysis of an increasing number of high resolution images obtained by the CTX and HiRISE instruments. Currently the authors seek to resolve several science issues that have been identified during this mapping, including: what is the origin of the lobate flows on the NW and SW rims of the crater?; how did the ejecta curtain break apart during the formation of the crater, and how uniform was the emplacement process for the ejecta layers; and, can we infer physical characteristics about the ejecta? Future study plans include the completion of a draft geologic map of Tooting crater and submission of it to the U.S. Geological survey for a preliminary review, publishing a second research paper on the detailed geology of the crater cavity and the distribution of the flows on the crater rim, and completing the map text for the 1:100K geologic map description of units at Tooting crater.

Molecular mapping of chromosomes 17 and X. Progress report

DOE Office of Scientific and Technical Information (OSTI.GOV)

Barker, D.F.

1989-12-31

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 markersmore » 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.« less

Molecular mapping of chromosomes 17 and X

DOE Office of Scientific and Technical Information (OSTI.GOV)

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 markersmore » 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.« less

High resolution physical mapping of single gene fragments on pachytene chromosome 4 and 7 of Rosa.

PubMed

Kirov, Ilya V; Van Laere, Katrijn; Khrustaleva, Ludmila I

2015-07-02

Rosaceae is a family containing many economically important fruit and ornamental species. Although fluorescence in situ hybridization (FISH)-based physical mapping of plant genomes is a valuable tool for map-based cloning, comparative genomics and evolutionary studies, no studies using high resolution physical mapping have been performed in this family. Previously we proved that physical mapping of single-copy genes as small as 1.1 kb is possible on mitotic metaphase chromosomes of Rosa wichurana using Tyramide-FISH. In this study we aimed to further improve the physical map of Rosa wichurana by applying high resolution FISH to pachytene chromosomes. Using high resolution Tyramide-FISH and multicolor Tyramide-FISH, 7 genes (1.7-3 kb) were successfully mapped on pachytene chromosomes 4 and 7 of Rosa wichurana. Additionally, by using multicolor Tyramide-FISH three closely located genes were simultaneously visualized on chromosome 7. A detailed map of heterochromatine/euchromatine patterns of chromosome 4 and 7 was developed with indication of the physical position of these 7 genes. Comparison of the gene order between Rosa wichurana and Fragaria vesca revealed a poor collinearity for chromosome 7, but a perfect collinearity for chromosome 4. High resolution physical mapping of short probes on pachytene chromosomes of Rosa wichurana was successfully performed for the first time. Application of Tyramide-FISH on pachytene chromosomes allowed the mapping resolution to be increased up to 20 times compared to mitotic metaphase chromosomes. High resolution Tyramide-FISH and multicolor Tyramide-FISH might become useful tools for further physical mapping of single-copy genes and for the integration of physical and genetic maps of Rosa wichurana and other members of the Rosaceae.

Tracking and Motion Analysis of Crack Propagations in Crystals for Molecular Dynamics

DOE Office of Scientific and Technical Information (OSTI.GOV)

Tsap, L V; Duchaineau, M; Goldgof, D B

2001-05-14

This paper presents a quantitative analysis for a discovery in molecular dynamics. Recent simulations have shown that velocities of crack propagations in crystals under certain conditions can become supersonic, which is contrary to classical physics. In this research, they present a framework for tracking and motion analysis of crack propagations in crystals. It includes line segment extraction based on Canny edge maps, feature selection based on physical properties, and subsequent tracking of primary and secondary wavefronts. This tracking is completely automated; it runs in real time on three 834-image sequences using forty 250 MHZ processors. Results supporting physical observations aremore » presented in terms of both feature tracking and velocity analysis.« less

Neo-Deterministic and Probabilistic Seismic Hazard Assessments: a Comparative Analysis

NASA Astrophysics Data System (ADS)

Peresan, Antonella; Magrin, Andrea; Nekrasova, Anastasia; Kossobokov, Vladimir; Panza, Giuliano F.

2016-04-01

Objective testing is the key issue towards any reliable seismic hazard assessment (SHA). Different earthquake hazard maps must demonstrate their capability in anticipating ground shaking from future strong earthquakes before an appropriate use for different purposes - such as engineering design, insurance, and emergency management. Quantitative assessment of maps performances is an essential step also in scientific process of their revision and possible improvement. Cross-checking of probabilistic models with available observations and independent physics based models is recognized as major validation procedure. The existing maps from the classical probabilistic seismic hazard analysis (PSHA), as well as those from the neo-deterministic analysis (NDSHA), which have been already developed for several regions worldwide (including Italy, India and North Africa), are considered to exemplify the possibilities of the cross-comparative analysis in spotting out limits and advantages of different methods. Where the data permit, a comparative analysis versus the documented seismic activity observed in reality is carried out, showing how available observations about past earthquakes can contribute to assess performances of the different methods. Neo-deterministic refers to a scenario-based approach, which allows for consideration of a wide range of possible earthquake sources as the starting point for scenarios constructed via full waveforms modeling. The method does not make use of empirical attenuation models (i.e. Ground Motion Prediction Equations, GMPE) and naturally supplies realistic time series of ground shaking (i.e. complete synthetic seismograms), readily applicable to complete engineering analysis and other mitigation actions. The standard NDSHA maps provide reliable envelope estimates of maximum seismic ground motion from a wide set of possible scenario earthquakes, including the largest deterministically or historically defined credible earthquake. In addition, the flexibility of NDSHA allows for generation of ground shaking maps at specified long-term return times, which may permit a straightforward comparison between NDSHA and PSHA maps in terms of average rates of exceedance for specified time windows. The comparison of NDSHA and PSHA maps, particularly for very long recurrence times, may indicate to what extent probabilistic ground shaking estimates are consistent with those from physical models of seismic waves propagation. A systematic comparison over the territory of Italy is carried out exploiting the uniqueness of the Italian earthquake catalogue, a data set covering more than a millennium (a time interval about ten times longer than that available in most of the regions worldwide) with a satisfactory completeness level for M>5, which warrants the results of analysis. By analysing in some detail seismicity in the Vrancea region, we show that well constrained macroseismic field information for individual earthquakes may provide useful information about the reliability of ground shaking estimates. Finally, in order to generalise observations, the comparative analysis is extended to further regions where both standard NDSHA and PSHA maps are available (e.g. State of Gujarat, India). The final Global Seismic Hazard Assessment Program (GSHAP) results and the most recent version of Seismic Hazard Harmonization in Europe (SHARE) project maps, along with other national scale probabilistic maps, all obtained by PSHA, are considered for this comparative analysis.

How do they make it look so easy? The expert orienteer's cognitive advantage.

PubMed

Eccles, David W; Arsal, Guler

2015-01-01

Expertise in sport can appear so extraordinary that it is difficult to imagine how "normal" individuals may achieve it. However, in this review, we show that experts in the sport of orienteering, which requires on-foot navigation using map and compass through wild terrain, can make the difficult look easy because they have developed a cognitive advantage. Specifically, they have acquired knowledge of cognitive and behavioural strategies that allow them to circumvent natural limitations on attention. Cognitive strategies include avoiding peaks of demand on attention by distributing the processing of map information over time and reducing the need to attend to the map by simplifying the navigation required to complete a race. Behavioural strategies include reducing the visual search required of the map by physically arranging and rearranging the map display during races. It is concluded that expertise in orienteering can be partly attributed to the circumvention of natural limitations on attention achieved via the employment of acquired cognitive and behavioural strategies. Thus, superior performance in sport may not be the possession of only a privileged few; it may be available to all aspiring athletes.

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

USDA-ARS?s Scientific Manuscript database

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...

A complete sample of double-lobed radio quasars for VLBI tests of source models - Definition and statistics

NASA Technical Reports Server (NTRS)

Hough, D. H.; Readhead, A. C. S.

1989-01-01

A complete, flux-density-limited sample of double-lobed radio quasars is defined, with nuclei bright enough to be mapped with the Mark III VLBI system. It is shown that the statistics of linear size, nuclear strength, and curvature are consistent with the assumption of random source orientations and simple relativistic beaming in the nuclei. However, these statistics are also consistent with the effects of interaction between the beams and the surrounding medium. The distribution of jet velocities in the nuclei, as measured with VLBI, will provide a powerful test of physical theories of extragalactic radio sources.

Correlated full-field and pointwise temporally resolved measurements of thermomechanical stress inside an operating power transistor

NASA Astrophysics Data System (ADS)

Borza, Dan N.; Gautrelet, Christophe

2015-01-01

The paper describes a measurement system based on time-resolved speckle interferometry, able to record long series of thermally induced full-field deformation maps of die and wire bonds inside an operating power transistor. The origin of the deformation is the transistor heating during its normal operation. The full-field results consist in completely unwrapped deformation maps for out-of-plane displacements greater than 14 μm, with nanometer resolution, in presence of discontinuities due to structural and material inhomogeneity. These measurements are synchronized with the measurement of heatsink temperature and of base-emitter junction temperature, so as to provide data related to several interacting physical parameters. The temporal histories of the displacement are also accessible for any point. They are correlated with the thermal and electrical time series. Mechanical full-field curvatures may also be estimated, making these measurements useful for inspecting physical origins of thermomechanical stresses and for interacting with numerical models used in reliability-related studies.

Physics, Techniques and Review of Neuroradiological Applications of Diffusion Kurtosis Imaging (DKI).

PubMed

Marrale, M; Collura, G; Brai, M; Toschi, N; Midiri, F; La Tona, G; Lo Casto, A; Gagliardo, C

2016-12-01

In recent years many papers about diagnostic applications of diffusion tensor imaging (DTI) have been published. This is because DTI allows to evaluate in vivo and in a non-invasive way the process of diffusion of water molecules in biological tissues. However, the simplified description of the diffusion process assumed in DTI does not permit to completely map the complex underlying cellular components and structures, which hinder and restrict the diffusion of water molecules. These limitations can be partially overcome by means of diffusion kurtosis imaging (DKI). The aim of this paper is the description of the theory of DKI, a new topic of growing interest in radiology. DKI is a higher order diffusion model that is a straightforward extension of the DTI model. Here, we analyze the physics underlying this method, we report our MRI acquisition protocol with the preprocessing pipeline used and the DKI parametric maps obtained on a 1.5 T scanner, and we review the most relevant clinical applications of this technique in various neurological diseases.

Revealing Fermi arcs and Weyl nodes in MoTe2 by quasiparticle interference mapping

NASA Astrophysics Data System (ADS)

Deng, Peng; Xu, Zhilin; Deng, Ke; Zhang, Kenan; Wu, Yang; Zhang, Haijun; Zhou, Shuyun; Chen, Xi

2017-06-01

A Weyl semimetal exhibits unique properties with Weyl nodes in the bulk and Fermi arcs on the surface. Recently, MoTe2 was found to be a type-II Weyl semimetal, providing a platform for realizing these Weyl physics. Here, we report visualization of topological surface states on the surface of MoTe2 using a scanning tunneling microscope. Scattering between topological states forms quasiparticle interference (QPI) patterns in the Fourier transform of conductance maps. The complete existence of topological surface states in energy momentum space is revealed by d I /d V mapping. By comparing QPI results with a first-principles calculation, we further unveil the locations of Weyl nodes in the surface Brillouin zone. Our work provides spectroscopic information in the unoccupied states, especially those around the Weyl nodes energy, demonstrating the node-arc correlation in Weyl semimetals.

A Basketball Court-Size Global Map of Mars for Education and Public Outreach

NASA Astrophysics Data System (ADS)

Hill, J. R.; Christensen, P. R.

2017-12-01

The Thermal Emission Imaging System (THEMIS) onboard the 2001 Mars Odyssey spacecraft has acquired over 220,000 infrared images of the Martian surface at a resolution of 100 m/pixel since the start of science operations in February 2002. A global map was previously developed by mosaicking together over 24,000 high-quality full-resolution THEMIS daytime infrared images. Although the resulting map has been extremely valuable for scientific and mission operations applications, it has been difficult to communicate this value to students, citizen scientists and the general public, since their interactions with the map have been limited to computer-based geographic information system (GIS) interfaces. We determined that, in order to better communicate the value and importance of mapping the entire Martian surface at this resolution, people need to be able to physically interact with the map and experience its full scale. Therefore, the THEMIS Day IR Global Mosaic with Colorized MOLA Elevation will be printed on a 45ft x 90ft vinyl mat, which will allow observers to walk across and physically experience the map at approximately full resolution (printed at 200 pixels per inch). The size of the map was chosen to fit on a standard high school basketball court, so that a large number of schools will have a sufficiently large indoor surface on which to display the map for education events. The vinyl material and printing process selected for the map have been proven to be wear-resistant in similar applications, as long as everyone who walks on the map wears socks or similarly soft foot coverings. In order to make transportation easier, the map will be printed in two 45ft x 45ft sections, which will be joined together at events to create the full 45ft x 90ft map. The final stages of the map production will take place in early fall 2017, followed by initial education events at Arizona State University and local schools to test the educational activities associated with the map. This project was partially inspired by the National Geographic Society's Giant Traveling Maps Program, was completed with the assistance of the Arizona Geographic Alliance, and was largely funded through the Arizona State University School of Earth and Space Exploration (SESE) Summer Exploration Graduate Fellowship program.

The Implementation of Physics Problem Solving Strategy Combined with Concept Map in General Physics Course

NASA Astrophysics Data System (ADS)

Hidayati, H.; Ramli, R.

2018-04-01

This paper aims to provide a description of the implementation of Physic Problem Solving strategy combined with concept maps in General Physics learning at Department of Physics, Universitas Negeri Padang. Action research has been conducted in two cycles where each end of the cycle is reflected and improved for the next cycle. Implementation of Physics Problem Solving strategy combined with concept map can increase student activity in solving general physics problem with an average increase of 15% and can improve student learning outcomes from 42,7 in the cycle I become 62,7 in cycle II in general physics at the Universitas Negeri Padang. In the future, the implementation of Physic Problem Solving strategy combined with concept maps will need to be considered in Physics courses.

Failure mode and effects analysis: A community practice perspective.

PubMed

Schuller, Bradley W; Burns, Angi; Ceilley, Elizabeth A; King, Alan; LeTourneau, Joan; Markovic, Alexander; Sterkel, Lynda; Taplin, Brigid; Wanner, Jennifer; Albert, Jeffrey M

2017-11-01

To report our early experiences with failure mode and effects analysis (FMEA) in a community practice setting. The FMEA facilitator received extensive training at the AAPM Summer School. Early efforts focused on department education and emphasized the need for process evaluation in the context of high profile radiation therapy accidents. A multidisciplinary team was assembled with representation from each of the major department disciplines. Stereotactic radiosurgery (SRS) was identified as the most appropriate treatment technique for the first FMEA evaluation, as it is largely self-contained and has the potential to produce high impact failure modes. Process mapping was completed using breakout sessions, and then compiled into a simple electronic format. Weekly sessions were used to complete the FMEA evaluation. Risk priority number (RPN) values > 100 or severity scores of 9 or 10 were considered high risk. The overall time commitment was also tracked. The final SRS process map contained 15 major process steps and 183 subprocess steps. Splitting the process map into individual assignments was a successful strategy for our group. The process map was designed to contain enough detail such that another radiation oncology team would be able to perform our procedures. Continuous facilitator involvement helped maintain consistent scoring during FMEA. Practice changes were made responding to the highest RPN scores, and new resulting RPN scores were below our high-risk threshold. The estimated person-hour equivalent for project completion was 258 hr. This report provides important details on the initial steps we took to complete our first FMEA, providing guidance for community practices seeking to incorporate this process into their quality assurance (QA) program. Determining the feasibility of implementing complex QA processes into different practice settings will take on increasing significance as the field of radiation oncology transitions into the new TG-100 QA paradigm. © 2017 The Authors. Journal of Applied Clinical Medical Physics published by Wiley Periodicals, Inc. on behalf of American Association of Physicists in Medicine.

Mapping urban revitalization: using GIS spatial analysis to evaluate a new housing policy.

PubMed

Perkins, Douglas D; Larsen, Courtney; Brown, Barbara B

2009-01-01

This longitudinal, multimethod study uses geographical information system (GIS) software to evaluate the community-wide impact of a neighborhood revitalization project. Unsystematic visual examination and analysis of GIS maps are offered as a complementary tool to quantitative analysis and one that is much more compelling, meaningful, and effective in presentation to community and nonscientific professional audiences. The centerpiece of the intervention was the development of a new, middle-class housing subdivision in an area that was declining physically and economically. This represents three major urban/housing policy directions: (1) the emphasis on home ownership for working-class families, (2) the deconcentration of poverty through development of mixed-income neighborhoods, and (3) the clean up and redevelopment of contaminated, former industrial brownfields. Resident survey responses, objective environmental assessment observations, and building permit data were collected, geocoded at the address level, and aggregated to the block level on 60 street blocks in the older neighborhoods surrounding the new housing in two waves: during site clearing and housing construction (Time 1: 1993-95) and three years post-completion (Time 2: 1998-99). Variables mapped include (a) Time 1-2 change in self-reported home repairs and improvements, (b) change in the assessed physical condition of yards and exteriors of 925 individual residential properties, (c) change in residents' home pride, and (d) a city archive of building permits at Time 2. Physical conditions improved overall in the neighborhood, but spatial analysis of the maps suggest that the spillover effects, if any, of the new housing were geographically limited and included unintended negative psychological consequences. Results argue for greater use of GIS and the street block level in community research and of psychological and behavioral variables in planning research and decisions.

Adding maps (GPS) to accelerometry data to improve study participants' recall of physical activity: a methodological advance in physical activity research.

PubMed

Brown, Barbara B; Wilson, Laura; Tribby, Calvin P; Werner, Carol M; Wolf, Jean; Miller, Harvey J; Smith, Ken R

2014-07-01

Obtaining the 'when, where and why' of healthy bouts of moderate-to-vigorous physical activity (MVPA) provides insights into natural PA. In Salt Lake City, Utah, adults wore accelerometer and Global Positioning System (GPS) loggers for a week in a cross-sectional study to establish baseline travel and activity patterns near a planned Complete Street intervention involving a new rail line, new sidewalks and a bike path. At the end of the week, research assistants met with the 918 participants who had at least three 10 h days of good accelerometer readings. Accelerometer and GPS data were uploaded and integrated within a custom application, and participants were provided with maps and time information for past MVPA bouts of ≥3 min to help them recall bout details. Participants said that 'getting someplace' was, on average, a more important motivation for their bouts than leisure or exercise. A series of recall tests showed that participants recalled most bouts they were asked about, regardless of the duration of the bout, suggesting that participant perceptions of their shorter lifestyle bouts can be studied with this methodology. Visual prompting with a map depicting where each bout took place yielded more accurate recall than prompting with time cues alone. These techniques provide a novel way to understand participant memories of the context and subjective assessments associated with healthy bouts of PA. Prompts with time-stamped maps that illustrate places of MVPA offer an effective method to improve understanding of activity and its supportive sociophysical contexts. Published by the BMJ Publishing Group Limited. For permission to use (where not already granted under a licence) please go to http://group.bmj.com/group/rights-licensing/permissions.

Centromere Locations in Brassica A and C Genomes Revealed Through Half-Tetrad Analysis

PubMed Central

Mason, Annaliese S.; Rousseau-Gueutin, Mathieu; Morice, Jérôme; Bayer, Philipp E.; Besharat, Naghmeh; Cousin, Anouska; Pradhan, Aneeta; Parkin, Isobel A. P.; Chèvre, Anne-Marie; Batley, Jacqueline; Nelson, Matthew N.

2016-01-01

Locating centromeres on genome sequences can be challenging. The high density of repetitive elements in these regions makes sequence assembly problematic, especially when using short-read sequencing technologies. It can also be difficult to distinguish between active and recently extinct centromeres through sequence analysis. An effective solution is to identify genetically active centromeres (functional in meiosis) by half-tetrad analysis. This genetic approach involves detecting heterozygosity along chromosomes in segregating populations derived from gametes (half-tetrads). Unreduced gametes produced by first division restitution mechanisms comprise complete sets of nonsister chromatids. Along these chromatids, heterozygosity is maximal at the centromeres, and homologous recombination events result in homozygosity toward the telomeres. We genotyped populations of half-tetrad-derived individuals (from Brassica interspecific hybrids) using a high-density array of physically anchored SNP markers (Illumina Brassica 60K Infinium array). Mapping the distribution of heterozygosity in these half-tetrad individuals allowed the genetic mapping of all 19 centromeres of the Brassica A and C genomes to the reference Brassica napus genome. Gene and transposable element density across the B. napus genome were also assessed and corresponded well to previously reported genetic map positions. Known centromere-specific sequences were located in the reference genome, but mostly matched unanchored sequences, suggesting that the core centromeric regions may not yet be assembled into the pseudochromosomes of the reference genome. The increasing availability of genetic markers physically anchored to reference genomes greatly simplifies the genetic and physical mapping of centromeres using half-tetrad analysis. We discuss possible applications of this approach, including in species where half-tetrads are currently difficult to isolate. PMID:26614742

Centromere Locations in Brassica A and C Genomes Revealed Through Half-Tetrad Analysis.

PubMed

Mason, Annaliese S; Rousseau-Gueutin, Mathieu; Morice, Jérôme; Bayer, Philipp E; Besharat, Naghmeh; Cousin, Anouska; Pradhan, Aneeta; Parkin, Isobel A P; Chèvre, Anne-Marie; Batley, Jacqueline; Nelson, Matthew N

2016-02-01

Locating centromeres on genome sequences can be challenging. The high density of repetitive elements in these regions makes sequence assembly problematic, especially when using short-read sequencing technologies. It can also be difficult to distinguish between active and recently extinct centromeres through sequence analysis. An effective solution is to identify genetically active centromeres (functional in meiosis) by half-tetrad analysis. This genetic approach involves detecting heterozygosity along chromosomes in segregating populations derived from gametes (half-tetrads). Unreduced gametes produced by first division restitution mechanisms comprise complete sets of nonsister chromatids. Along these chromatids, heterozygosity is maximal at the centromeres, and homologous recombination events result in homozygosity toward the telomeres. We genotyped populations of half-tetrad-derived individuals (from Brassica interspecific hybrids) using a high-density array of physically anchored SNP markers (Illumina Brassica 60K Infinium array). Mapping the distribution of heterozygosity in these half-tetrad individuals allowed the genetic mapping of all 19 centromeres of the Brassica A and C genomes to the reference Brassica napus genome. Gene and transposable element density across the B. napus genome were also assessed and corresponded well to previously reported genetic map positions. Known centromere-specific sequences were located in the reference genome, but mostly matched unanchored sequences, suggesting that the core centromeric regions may not yet be assembled into the pseudochromosomes of the reference genome. The increasing availability of genetic markers physically anchored to reference genomes greatly simplifies the genetic and physical mapping of centromeres using half-tetrad analysis. We discuss possible applications of this approach, including in species where half-tetrads are currently difficult to isolate. Copyright © 2016 by the Genetics Society of America.

Bayesian analysis of anisotropic cosmologies: Bianchi VIIh and WMAP

NASA Astrophysics Data System (ADS)

McEwen, J. D.; Josset, T.; Feeney, S. M.; Peiris, H. V.; Lasenby, A. N.

2013-12-01

We perform a definitive analysis of Bianchi VIIh cosmologies with Wilkinson Microwave Anisotropy Probe (WMAP) observations of the cosmic microwave background (CMB) temperature anisotropies. Bayesian analysis techniques are developed to study anisotropic cosmologies using full-sky and partial-sky masked CMB temperature data. We apply these techniques to analyse the full-sky internal linear combination (ILC) map and a partial-sky masked W-band map of WMAP 9 yr observations. In addition to the physically motivated Bianchi VIIh model, we examine phenomenological models considered in previous studies, in which the Bianchi VIIh parameters are decoupled from the standard cosmological parameters. In the two phenomenological models considered, Bayes factors of 1.7 and 1.1 units of log-evidence favouring a Bianchi component are found in full-sky ILC data. The corresponding best-fitting Bianchi maps recovered are similar for both phenomenological models and are very close to those found in previous studies using earlier WMAP data releases. However, no evidence for a phenomenological Bianchi component is found in the partial-sky W-band data. In the physical Bianchi VIIh model, we find no evidence for a Bianchi component: WMAP data thus do not favour Bianchi VIIh cosmologies over the standard Λ cold dark matter (ΛCDM) cosmology. It is not possible to discount Bianchi VIIh cosmologies in favour of ΛCDM completely, but we are able to constrain the vorticity of physical Bianchi VIIh cosmologies at (ω/H)0 < 8.6 × 10-10 with 95 per cent confidence.

Does Availability of Worksite Supports for Physical Activity Differ by Industry and Occupation?

PubMed

Dodson, Elizabeth A; Hipp, J Aaron; Lee, Jung Ae; Yang, Lin; Marx, Christine M; Tabak, Rachel G; Brownson, Ross C

2018-03-01

To explore combinations of worksite supports (WSS) for physical activity (PA) that may assist employees in meeting PA recommendations and to investigate how availability of WSS differs across industries and occupations. Cross-sectional. Several Missouri metropolitan areas. Adults employed >20 h/wk outside the home. Survey utilized existing self-reported measures (eg, presence of WSS for PA) and the International Physical Activity Questionnaire. Logistic regression was conducted for 2 outcome variables: leisure and transportation PA. Independent variables included 16 WSS. Of particular interest were interaction effects between WSS variables. Analyses were stratified by 5 occupation and 7 industry types. Overall, 2013 people completed the survey (46% response rate). Often, availability of 1 WSS did not increase the likelihood of meeting PA recommendations, but several pairs of WSS did. For example, in business occupations, the odds of meeting PA recommendations through transportation PA increased when employees had access to showers and incentives to bike/walk (odds ratio [OR] = 1.6; 95% confidence interval [CI] = 1.16-2.22); showers and maps (OR = 1.25; 1.02-1.55); maps and incentives to bike/walk (OR = 1.48; 1.04-2.12). Various combinations of WSS may increase the likelihood that employees will meet PA recommendations. Many are of low or no cost, including flexible time for exercise and maps of worksite-adjacent walk/bike routes. Findings may be instructive for employers seeking to improve employee health through worksite PA.

Proceedings of National Computer Security Conference Held in Washington, DC on 15-18 September 1986 (Computer Security - for Today and for Tomorrow

DTIC Science & Technology

1986-09-18

physical and administrativo security tech- These methods are, on the whole, at an early 163 • -- I I " • I I I II I ,I U niques. As in many other areas...o,t) I o member-of 0, t member-of (data;files;pgmstsubjects;i/o T and o maps-completely-to t) devices) S :- set of all subjects ( procesoes ;pgms

The Release 6 reference sequence of the Drosophila melanogaster genome

DOE PAGES

Hoskins, Roger A.; Carlson, Joseph W.; Wan, Kenneth H.; ...

2015-01-14

Drosophila melanogaster plays an important role in molecular, genetic, and genomic studies of heredity, development, metabolism, behavior, and human disease. The initial reference genome sequence reported more than a decade ago had a profound impact on progress in Drosophila research, and improving the accuracy and completeness of this sequence continues to be important to further progress. We previously described improvement of the 117-Mb sequence in the euchromatic portion of the genome and 21 Mb in the heterochromatic portion, using a whole-genome shotgun assembly, BAC physical mapping, and clone-based finishing. Here, we report an improved reference sequence of the single-copy andmore » middle-repetitive regions of the genome, produced using cytogenetic mapping to mitotic and polytene chromosomes, clone-based finishing and BAC fingerprint verification, ordering of scaffolds by alignment to cDNA sequences, incorporation of other map and sequence data, and validation by whole-genome optical restriction mapping. These data substantially improve the accuracy and completeness of the reference sequence and the order and orientation of sequence scaffolds into chromosome arm assemblies. Representation of the Y chromosome and other heterochromatic regions is particularly improved. The new 143.9-Mb reference sequence, designated Release 6, effectively exhausts clone-based technologies for mapping and sequencing. Highly repeat-rich regions, including large satellite blocks and functional elements such as the ribosomal RNA genes and the centromeres, are largely inaccessible to current sequencing and assembly methods and remain poorly represented. In conclusion, further significant improvements will require sequencing technologies that do not depend on molecular cloning and that produce very long reads.« less

The Release 6 reference sequence of the Drosophila melanogaster genome

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hoskins, Roger A.; Carlson, Joseph W.; Wan, Kenneth H.

Drosophila melanogaster plays an important role in molecular, genetic, and genomic studies of heredity, development, metabolism, behavior, and human disease. The initial reference genome sequence reported more than a decade ago had a profound impact on progress in Drosophila research, and improving the accuracy and completeness of this sequence continues to be important to further progress. We previously described improvement of the 117-Mb sequence in the euchromatic portion of the genome and 21 Mb in the heterochromatic portion, using a whole-genome shotgun assembly, BAC physical mapping, and clone-based finishing. Here, we report an improved reference sequence of the single-copy andmore » middle-repetitive regions of the genome, produced using cytogenetic mapping to mitotic and polytene chromosomes, clone-based finishing and BAC fingerprint verification, ordering of scaffolds by alignment to cDNA sequences, incorporation of other map and sequence data, and validation by whole-genome optical restriction mapping. These data substantially improve the accuracy and completeness of the reference sequence and the order and orientation of sequence scaffolds into chromosome arm assemblies. Representation of the Y chromosome and other heterochromatic regions is particularly improved. The new 143.9-Mb reference sequence, designated Release 6, effectively exhausts clone-based technologies for mapping and sequencing. Highly repeat-rich regions, including large satellite blocks and functional elements such as the ribosomal RNA genes and the centromeres, are largely inaccessible to current sequencing and assembly methods and remain poorly represented. In conclusion, further significant improvements will require sequencing technologies that do not depend on molecular cloning and that produce very long reads.« less

Creation and Delivery of New Superpixelized DIRBE Map Products

NASA Technical Reports Server (NTRS)

Weiland, J.

1998-01-01

Phase 1 called for the following tasks: (1) completion of code to generate intermediate files containing the individual DIRBE observations which would be used to make the superpixelized maps; (2) completion of code necessary to generate the maps themselves; and (3) quality control on test-case maps in the form of point-source extraction and photometry. Items 1 and 2 are well in hand and the tested code is nearly complete. A few test maps have been generated for the tests mentioned in item 3. Map generation is not in production mode yet.

Integrated physical map of bread wheat chromosome arm 7DS to facilitate gene cloning and comparative studies.

PubMed

Tulpová, Zuzana; Luo, Ming-Cheng; Toegelová, Helena; Visendi, Paul; Hayashi, Satomi; Vojta, Petr; Paux, Etienne; Kilian, Andrzej; Abrouk, Michaël; Bartoš, Jan; Hajdúch, Marián; Batley, Jacqueline; Edwards, David; Doležel, Jaroslav; Šimková, Hana

2018-03-08

Bread wheat (Triticum aestivum L.) is a staple food for a significant part of the world's population. The growing demand on its production can be satisfied by improving yield and resistance to biotic and abiotic stress. Knowledge of the genome sequence would aid in discovering genes and QTLs underlying these traits and provide a basis for genomics-assisted breeding. Physical maps and BAC clones associated with them have been valuable resources from which to generate a reference genome of bread wheat and to assist map-based gene cloning. As a part of a joint effort coordinated by the International Wheat Genome Sequencing Consortium, we have constructed a BAC-based physical map of bread wheat chromosome arm 7DS consisting of 895 contigs and covering 94% of its estimated length. By anchoring BAC contigs to one radiation hybrid map and three high resolution genetic maps, we assigned 73% of the assembly to a distinct genomic position. This map integration, interconnecting a total of 1713 markers with ordered and sequenced BAC clones from a minimal tiling path, provides a tool to speed up gene cloning in wheat. The process of physical map assembly included the integration of the 7DS physical map with a whole-genome physical map of Aegilops tauschii and a 7DS Bionano genome map, which together enabled efficient scaffolding of physical-map contigs, even in the non-recombining region of the genetic centromere. Moreover, this approach facilitated a comparison of bread wheat and its ancestor at BAC-contig level and revealed a reconstructed region in the 7DS pericentromere. Copyright © 2018. Published by Elsevier B.V.

A high-resolution physically-based global flood hazard map

NASA Astrophysics Data System (ADS)

Kaheil, Y.; Begnudelli, L.; McCollum, J.

2016-12-01

We present the results from a physically-based global flood hazard model. The model uses a physically-based hydrologic model to simulate river discharges, and 2D hydrodynamic model to simulate inundation. The model is set up such that it allows the application of large-scale flood hazard through efficient use of parallel computing. For hydrology, we use the Hillslope River Routing (HRR) model. HRR accounts for surface hydrology using Green-Ampt parameterization. The model is calibrated against observed discharge data from the Global Runoff Data Centre (GRDC) network, among other publicly-available datasets. The parallel-computing framework takes advantage of the river network structure to minimize cross-processor messages, and thus significantly increases computational efficiency. For inundation, we implemented a computationally-efficient 2D finite-volume model with wetting/drying. The approach consists of simulating flood along the river network by forcing the hydraulic model with the streamflow hydrographs simulated by HRR, and scaled up to certain return levels, e.g. 100 years. The model is distributed such that each available processor takes the next simulation. Given an approximate criterion, the simulations are ordered from most-demanding to least-demanding to ensure that all processors finalize almost simultaneously. Upon completing all simulations, the maximum envelope of flood depth is taken to generate the final map. The model is applied globally, with selected results shown from different continents and regions. The maps shown depict flood depth and extent at different return periods. These maps, which are currently available at 3 arc-sec resolution ( 90m) can be made available at higher resolutions where high resolution DEMs are available. The maps can be utilized by flood risk managers at the national, regional, and even local levels to further understand their flood risk exposure, exercise certain measures of mitigation, and/or transfer the residual risk financially through flood insurance programs.

Analysis of elemental maps from glaze to body of ancient Chinese Jun and Ru porcelain by micro-X-ray fluorescence

NASA Astrophysics Data System (ADS)

Cheng, Lin; Li, Rongwu; Pan, Qiuli; Li, Guoxia; Zhao, Weijuan; Liu, Zhiguo

2009-01-01

The reasons how the middle layer of Ru and Jun porcelain between the glaze and body came into being are still not completely understood. Here, elemental maps from the glaze to the body of pieces of ancient Chinese Ru and Jun porcelain were analyzed by micro-X-ray fluorescence. The results show the middle layer was probably formed by the chemical composition of the glaze turning into glassy states and undergoing complex physical-chemical reactions with the body. However, the middle layer of Jun porcelain was formed by the chemical composition of the glaze turning into glassy states and then infiltrating the body at high temperatures during the firing process.

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

PubMed Central

Palti, Yniv; Luo, Ming-Cheng; Hu, Yuqin; Genet, Carine; You, Frank M; Vallejo, Roger L; Thorgaard, Gary H; Wheeler, Paul A; Rexroad, Caird E

2009-01-01

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 analyses, fine mapping of QTL, positional cloning, selection of positional candidate genes for economically important traits and the incorporation of MAS into rainbow trout breeding programs. PMID:19814815

Exploring physics concepts among novice teachers through CMAP tools

NASA Astrophysics Data System (ADS)

Suprapto, N.; Suliyanah; Prahani, B. K.; Jauhariyah, M. N. R.; Admoko, S.

2018-03-01

Concept maps are graphical tools for organising, elaborating and representing knowledge. Through Cmap tools software, it can be explored the understanding and the hierarchical structuring of physics concepts among novice teachers. The software helps physics teachers indicated a physics context, focus questions, parking lots, cross-links, branching, hierarchy, and propositions. By using an exploratory quantitative study, a total 13-concept maps with different physics topics created by novice physics teachers were analysed. The main differences of scoring between lecturer and peer-teachers’ scoring were also illustrated. The study offered some implications, especially for physics educators to determine the hierarchical structure of the physics concepts, to construct a physics focus question, and to see how a concept in one domain of knowledge represented on the map is related to a concept in another domain shown on the map.

Localization of Allotetraploid Gossypium SNPs Using Physical Mapping Resources

USDA-ARS?s Scientific Manuscript database

Recent efforts in Gossypium SNP development have produced thousands of putative SNPs for G. barbadense, G. mustelinum, and G. tomentosum relative to G. hirsutum. Here we report on current efforts to localize putative SNPs using physical mapping resources. Recent advances in physical mapping resour...

Reflections on the Hyperbolic Plane

NASA Astrophysics Data System (ADS)

Lecian, Orchidea Maria

2013-12-01

The most general solution to the Einstein equations in 4 = 3 + 1 dimensions in the asymptotic limit close to the cosmological singularity under the BKL (Belinskii-Khalatnikov-Lifshitz) hypothesis can be visualized by the behavior of a billiard ball in a triangular domain on the Upper Poincaré Half Plane (UPHP). The billiard system (named "big billiard") can be schematized by dividing the successions of trajectories according to Poincaré return map on the sides of the billiard table, according to the paradigms implemented by the BKL investigation and by the CB-LKSKS (Chernoff-Barrow-Lifshitz-Khalatnikov-Sinai-Khanin-Shchur) one. Different maps are obtained, according to different symmetry-quotienting mechanisms used to analyze the dynamics. In the inhomogeneous case, new structures have been uncovered, such that, in this framework, the billiard table (named "small billiard") consists of 1/6 of the previous one. The connections between the symmetry-quotienting mechanisms are further investigated on the UPHP. The relation between the complete billiard and the small billiard are also further explained according to the role of Weyl reflections. The quantum properties of the system are sketched as well, and the physical interpretation of the wave function is further developed. In particular, a physical interpretation for the symmetry-quotienting maps is proposed.

Learning about a Level Physics Students' Understandings of Particle Physics Using Concept Mapping

ERIC Educational Resources Information Center

Gourlay, H.

2017-01-01

This paper describes a small-scale piece of research using concept mapping to elicit A level students' understandings of particle physics. Fifty-nine year 12 (16- and 17 year-old) students from two London schools participated. The exercise took place during school physics lessons. Students were instructed how to make a concept map and were…

Developing and Validating an Abbreviated Version of the Microscale Audit for Pedestrian Streetscapes (MAPS-Abbreviated).

PubMed

Cain, Kelli L; Gavand, Kavita A; Conway, Terry L; Geremia, Carrie M; Millstein, Rachel A; Frank, Lawrence D; Saelens, Brian E; Adams, Marc A; Glanz, Karen; King, Abby C; Sallis, James F

2017-06-01

Macroscale built environment factors (e.g., street connectivity) are correlated with physical activity. Less-studied but more modifiable microscale elements (e.g., sidewalks) may also influence physical activity, but shorter audit measures of microscale elements are needed to promote wider use. This study evaluated the relation of an abbreviated 54-item streetscape audit tool with multiple measures of physical activity in four age groups. We developed a 54-item version from the original 120-item Microscale Audit of Pedestrian Streetscapes (MAPS). Audits were conducted on 0.25-0.45 mile routes from participant residences toward the nearest nonresidential destination for children (N=758), adolescents (N=897), younger adults (N=1,655), and older adults (N=367). Active transport and leisure physical activity were measured with surveys, and objective physical activity was measured with accelerometers. Items to retain from original MAPS were selected primarily by correlations with physical activity. Mixed linear regression analyses were conducted for MAPS-Abbreviated summary scores, adjusting for demographics, participant clustering, and macroscale walkability. MAPS-Abbreviated and original MAPS total scores correlated r=.94 The MAPS-Abbreviated tool was related similarly to physical activity outcomes as the original MAPS. Destinations and land use, streetscape and walking path characteristics, and overall total scores were significantly related to active transport in all age groups. Street crossing characteristics were related to active transport in children and older adults. Aesthetics and social characteristics were related to leisure physical activity in children and younger adults, and cul-de-sacs were related with physical activity in youth. Total scores were related to accelerometer-measured physical activity in children and older adults. MAPS-Abbreviated is a validated observational measure for use in research. The length and related cost of implementation has been cited as a barrier to use of microscale instruments, so availability of this shorter validated measure could lead to more widespread use of streetscape audits in health research.

Developing and Validating an Abbreviated Version of the Microscale Audit for Pedestrian Streetscapes (MAPS-Abbreviated)

PubMed Central

Cain, Kelli L.; Gavand, Kavita A.; Conway, Terry L.; Geremia, Carrie M.; Millstein, Rachel A.; Frank, Lawrence D.; Saelens, Brian E.; Adams, Marc A.; Glanz, Karen; King, Abby C.; Sallis, James F.

2017-01-01

Purpose Macroscale built environment factors (e.g., street connectivity) are correlated with physical activity. Less-studied but more modifiable microscale elements (e.g., sidewalks) may also influence physical activity, but shorter audit measures of microscale elements are needed to promote wider use. This study evaluated the relation of an abbreviated 54-item streetscape audit tool with multiple measures of physical activity in four age groups. Methods We developed a 54-item version from the original 120-item Microscale Audit of Pedestrian Streetscapes (MAPS). Audits were conducted on 0.25-0.45 mile routes from participant residences toward the nearest nonresidential destination for children (N=758), adolescents (N=897), younger adults (N=1,655), and older adults (N=367). Active transport and leisure physical activity were measured with surveys, and objective physical activity was measured with accelerometers. Items to retain from original MAPS were selected primarily by correlations with physical activity. Mixed linear regression analyses were conducted for MAPS-Abbreviated summary scores, adjusting for demographics, participant clustering, and macroscale walkability. Results MAPS-Abbreviated and original MAPS total scores correlated r=.94 The MAPS-Abbreviated tool was related similarly to physical activity outcomes as the original MAPS. Destinations and land use, streetscape and walking path characteristics, and overall total scores were significantly related to active transport in all age groups. Street crossing characteristics were related to active transport in children and older adults. Aesthetics and social characteristics were related to leisure physical activity in children and younger adults, and cul-de-sacs were related with physical activity in youth. Total scores were related to accelerometer-measured physical activity in children and older adults. Conclusion MAPS-Abbreviated is a validated observational measure for use in research. The length and related cost of implementation has been cited as a barrier to use of microscale instruments, so availability of this shorter validated measure could lead to more widespread use of streetscape audits in health research. PMID:29270361

The Influence of Growth Temperature on Sb Incorporation in InAsSb, and the Temperature-dependent Impact of Bi Surfactants

DTIC Science & Technology

2014-01-01

resolution X - ray diffraction (XRD) were collected for all samples, and reciprocal space maps (RSMs) were collected from selected samples. The complete data...exposure. The lines represent the model fit. 19 13 Figure 1. Triple axis x - ray diffraction from the bi-layered InAsSb structures grown on GaSb at...Applied Physics, Structural properties of bismuth‐bearing semiconductor alloys, 63 (1988) 107. 18 12 Figure Captions Figure 1. Triple axis x - ray

The AMANDA neutrino telescope: Science prospects and performance at first light

DOE Office of Scientific and Technical Information (OSTI.GOV)

Halzen, F.

1998-02-01

We update the science prospects for the recently completed AMANDA South Pole neutrino detector. With an effective telescope area of order 10{sup 4}thinspm{sup 2} and a threshold of {approximately}50 GeV, it represents the first instrument of a new generation of high energy neutrino detectors, envisaged over 25 years ago. We describe the instrument and its performance, and map its expansion to a detector of kilometer dimension. {copyright} {ital 1998 American Institute of Physics.}

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

ERIC Educational Resources Information Center

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…

Comparative physical mapping between wheat chromosome arm 2BL and rice chromosome 4.

PubMed

Lee, Tong Geon; Lee, Yong Jin; Kim, Dae Yeon; Seo, Yong Weon

2010-12-01

Physical maps of chromosomes provide a framework for organizing and integrating diverse genetic information. DNA microarrays are a valuable technique for physical mapping and can also be used to facilitate the discovery of single feature polymorphisms (SFPs). Wheat chromosome arm 2BL was physically mapped using a Wheat Genome Array onto near-isogenic lines (NILs) with the aid of wheat-rice synteny and mapped wheat EST information. Using high variance probe set (HVP) analysis, 314 HVPs constituting genes present on 2BL were identified. The 314 HVPs were grouped into 3 categories: HVPs that match only rice chromosome 4 (298 HVPs), those that match only wheat ESTs mapped on 2BL (1), and those that match both rice chromosome 4 and wheat ESTs mapped on 2BL (15). All HVPs were converted into gene sets, which represented either unique rice gene models or mapped wheat ESTs that matched identified HVPs. Comparative physical maps were constructed for 16 wheat gene sets and 271 rice gene sets. Of the 271 rice gene sets, 257 were mapped to the 18-35 Mb regions on rice chromosome 4. Based on HVP analysis and sequence similarity between the gene models in the rice chromosomes and mapped wheat ESTs, the outermost rice gene model that limits the translocation breakpoint to orthologous regions was identified.

An integrated genetic and physical map of the autosomal recessive polycystic kidney disease region

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lens, X.M.; Onuchic, L.F.; Daoust, M.

1997-05-01

Autosomal recessive polycystic kidney disease is one of the most common hereditary renal cystic diseases in children. Genetic studies have recently assigned the only known locus for this disorder, PKHD1, to chromosome 6p21-p12. We have generated a YAC contig that spans {approximately}5 cM of this region, defined by the markers D6S1253-D6S295, and have mapped 43 sequence-tagged sites (STS) within this interval. This set includes 20 novel STSs, which define 12 unique positions in the region, and three ESTs. A minimal set of two YACs spans the segment D6S465-D6S466, which contains PKHD1, and estimates of their sizes based on information inmore » public databases suggest that the size of the critical region is <3.1 Mb. Twenty-eight STSs map to this interval, giving an average STS density of <1/150 kb. These resources will be useful for establishing a complete trancription map of the PKHD1 region. 10 refs., 1 fig., 1 tab.« less

Extensive Conserved Synteny of Genes between the Karyotypes of Manduca sexta and Bombyx mori Revealed by BAC-FISH Mapping

PubMed Central

Tanaka-Okuyama, Makiko; Shibata, Fukashi; Yoshido, Atsuo; Marec, František; Wu, Chengcang; Zhang, Hongbin; Goldsmith, Marian R.

2009-01-01

Background Genome sequencing projects have been completed for several species representing four highly diverged holometabolous insect orders, Diptera, Hymenoptera, Coleoptera, and Lepidoptera. The striking evolutionary diversity of insects argues a need for efficient methods to apply genome information from such models to genetically uncharacterized species. Constructing conserved synteny maps plays a crucial role in this task. Here, we demonstrate the use of fluorescence in situ hybridization with bacterial artificial chromosome probes as a powerful tool for physical mapping of genes and comparative genome analysis in Lepidoptera, which have numerous and morphologically uniform holokinetic chromosomes. Methodology/Principal Findings We isolated 214 clones containing 159 orthologs of well conserved single-copy genes of a sequenced lepidopteran model, the silkworm, Bombyx mori, from a BAC library of a sphingid with an unexplored genome, the tobacco hornworm, Manduca sexta. We then constructed a BAC-FISH karyotype identifying all 28 chromosomes of M. sexta by mapping 124 loci using the corresponding BAC clones. BAC probes from three M. sexta chromosomes also generated clear signals on the corresponding chromosomes of the convolvulus hawk moth, Agrius convolvuli, which belongs to the same subfamily, Sphinginae, as M. sexta. Conclusions/Significance Comparison of the M. sexta BAC physical map with the linkage map and genome sequence of B. mori pointed to extensive conserved synteny including conserved gene order in most chromosomes. Only a few rearrangements, including three inversions, three translocations, and two fission/fusion events were estimated to have occurred after the divergence of Bombycidae and Sphingidae. These results add to accumulating evidence for the stability of lepidopteran genomes. Generating signals on A. convolvuli chromosomes using heterologous M. sexta probes demonstrated that BAC-FISH with orthologous sequences can be used for karyotyping a wide range of related and genetically uncharacterized species, significantly extending the ability to develop synteny maps for comparative and functional genomics. PMID:19829706

Example-based learning: comparing the effects of additionally providing three different integrative learning activities on physiotherapy intervention knowledge.

PubMed

Dyer, Joseph-Omer; Hudon, Anne; Montpetit-Tourangeau, Katherine; Charlin, Bernard; Mamede, Sílvia; van Gog, Tamara

2015-03-07

Example-based learning using worked examples can foster clinical reasoning. Worked examples are instructional tools that learners can use to study the steps needed to solve a problem. Studying worked examples paired with completion examples promotes acquisition of problem-solving skills more than studying worked examples alone. Completion examples are worked examples in which some of the solution steps remain unsolved for learners to complete. Providing learners engaged in example-based learning with self-explanation prompts has been shown to foster increased meaningful learning compared to providing no self-explanation prompts. Concept mapping and concept map study are other instructional activities known to promote meaningful learning. This study compares the effects of self-explaining, completing a concept map and studying a concept map on conceptual knowledge and problem-solving skills among novice learners engaged in example-based learning. Ninety-one physiotherapy students were randomized into three conditions. They performed a pre-test and a post-test to evaluate their gains in conceptual knowledge and problem-solving skills (transfer performance) in intervention selection. They studied three pairs of worked/completion examples in a digital learning environment. Worked examples consisted of a written reasoning process for selecting an optimal physiotherapy intervention for a patient. The completion examples were partially worked out, with the last few problem-solving steps left blank for students to complete. The students then had to engage in additional self-explanation, concept map completion or model concept map study in order to synthesize and deepen their knowledge of the key concepts and problem-solving steps. Pre-test performance did not differ among conditions. Post-test conceptual knowledge was higher (P < .001) in the concept map study condition (68.8 ± 21.8%) compared to the concept map completion (52.8 ± 17.0%) and self-explanation (52.2 ± 21.7%) conditions. Post-test problem-solving performance was higher (P < .05) in the self-explanation (63.2 ± 16.0%) condition compared to the concept map study (53.3 ± 16.4%) and concept map completion (51.0 ± 13.6%) conditions. Students in the self-explanation condition also invested less mental effort in the post-test. Studying model concept maps led to greater conceptual knowledge, whereas self-explanation led to higher transfer performance. Self-explanation and concept map study can be combined with worked example and completion example strategies to foster intervention selection.

Making a molecular gas in the quantum regime

NASA Astrophysics Data System (ADS)

Ni, Kang-Kuen

2017-04-01

Ultracold molecules are exciting systems for a large range of scientific explorations including studies of novel phases of matter and precision measurement. In this talk, I will present a brief story of the first quantum gas of molecules, KRb, created under my PhD advisor, Deborah Jin, in 2008. A complete surprise was finding ultracold chemistry in such a system through measurements of reactant losses. In particular, long-range physics that determines KRb reactant collision rates, including van der Waals interactions, quantum statistics, and dipolar interactions, were studied extensively. However, the short-range behavior of these chemical reactions remains unknown. A legacy of her work is carried out in my lab at Harvard, where we are integrating physical chemistry tools with cold atom techniques to study ultracold chemistry with KRb molecules. In particular, we aim to elucidate the four-center reaction 2 KRb ->K2 + Rb2 by detecting the reaction products through ionization - both identify the product species and mapping out their complete quantum states.

Predicting protein contact map using evolutionary and physical constraints by integer programming.

PubMed

Wang, Zhiyong; Xu, Jinbo

2013-07-01

Protein contact map describes the pairwise spatial and functional relationship of residues in a protein and contains key information for protein 3D structure prediction. Although studied extensively, it remains challenging to predict contact map using only sequence information. Most existing methods predict the contact map matrix element-by-element, ignoring correlation among contacts and physical feasibility of the whole-contact map. A couple of recent methods predict contact map by using mutual information, taking into consideration contact correlation and enforcing a sparsity restraint, but these methods demand for a very large number of sequence homologs for the protein under consideration and the resultant contact map may be still physically infeasible. This article presents a novel method PhyCMAP for contact map prediction, integrating both evolutionary and physical restraints by machine learning and integer linear programming. The evolutionary restraints are much more informative than mutual information, and the physical restraints specify more concrete relationship among contacts than the sparsity restraint. As such, our method greatly reduces the solution space of the contact map matrix and, thus, significantly improves prediction accuracy. Experimental results confirm that PhyCMAP outperforms currently popular methods no matter how many sequence homologs are available for the protein under consideration. http://raptorx.uchicago.edu.

DAVIS: A direct algorithm for velocity-map imaging system

NASA Astrophysics Data System (ADS)

Harrison, G. R.; Vaughan, J. C.; Hidle, B.; Laurent, G. M.

2018-05-01

In this work, we report a direct (non-iterative) algorithm to reconstruct the three-dimensional (3D) momentum-space picture of any charged particles collected with a velocity-map imaging system from the two-dimensional (2D) projected image captured by a position-sensitive detector. The method consists of fitting the measured image with the 2D projection of a model 3D velocity distribution defined by the physics of the light-matter interaction. The meaningful angle-correlated information is first extracted from the raw data by expanding the image with a complete set of Legendre polynomials. Both the particle's angular and energy distributions are then directly retrieved from the expansion coefficients. The algorithm is simple, easy to implement, fast, and explicitly takes into account the pixelization effect in the measurement.

Maize centromere structure and evolution: sequence analysis of centromeres 2 and 5 reveals dynamic Loci shaped primarily by retrotransposons.

PubMed

Wolfgruber, Thomas K; Sharma, Anupma; Schneider, Kevin L; Albert, Patrice S; Koo, Dal-Hoe; Shi, Jinghua; Gao, Zhi; Han, Fangpu; Lee, Hyeran; Xu, Ronghui; Allison, Jamie; Birchler, James A; Jiang, Jiming; Dawe, R Kelly; Presting, Gernot G

2009-11-01

We describe a comprehensive and general approach for mapping centromeres and present a detailed characterization of two maize centromeres. Centromeres are difficult to map and analyze because they consist primarily of repetitive DNA sequences, which in maize are the tandem satellite repeat CentC and interspersed centromeric retrotransposons of maize (CRM). Centromeres are defined epigenetically by the centromeric histone H3 variant, CENH3. Using novel markers derived from centromere repeats, we have mapped all ten centromeres onto the physical and genetic maps of maize. We were able to completely traverse centromeres 2 and 5, confirm physical maps by fluorescence in situ hybridization (FISH), and delineate their functional regions by chromatin immunoprecipitation (ChIP) with anti-CENH3 antibody followed by pyrosequencing. These two centromeres differ substantially in size, apparent CENH3 density, and arrangement of centromeric repeats; and they are larger than the rice centromeres characterized to date. Furthermore, centromere 5 consists of two distinct CENH3 domains that are separated by several megabases. Succession of centromere repeat classes is evidenced by the fact that elements belonging to the recently active recombinant subgroups of CRM1 colonize the present day centromeres, while elements of the ancestral subgroups are also found in the flanking regions. Using abundant CRM and non-CRM retrotransposons that inserted in and near these two centromeres to create a historical record of centromere location, we show that maize centromeres are fluid genomic regions whose borders are heavily influenced by the interplay of retrotransposons and epigenetic marks. Furthermore, we propose that CRMs may be involved in removal of centromeric DNA (specifically CentC), invasion of centromeres by non-CRM retrotransposons, and local repositioning of the CENH3.

Maize Centromere Structure and Evolution: Sequence Analysis of Centromeres 2 and 5 Reveals Dynamic Loci Shaped Primarily by Retrotransposons

PubMed Central

Albert, Patrice S.; Koo, Dal-Hoe; Shi, Jinghua; Gao, Zhi; Han, Fangpu; Lee, Hyeran; Xu, Ronghui; Allison, Jamie; Birchler, James A.; Jiang, Jiming; Dawe, R. Kelly; Presting, Gernot G.

2009-01-01

We describe a comprehensive and general approach for mapping centromeres and present a detailed characterization of two maize centromeres. Centromeres are difficult to map and analyze because they consist primarily of repetitive DNA sequences, which in maize are the tandem satellite repeat CentC and interspersed centromeric retrotransposons of maize (CRM). Centromeres are defined epigenetically by the centromeric histone H3 variant, CENH3. Using novel markers derived from centromere repeats, we have mapped all ten centromeres onto the physical and genetic maps of maize. We were able to completely traverse centromeres 2 and 5, confirm physical maps by fluorescence in situ hybridization (FISH), and delineate their functional regions by chromatin immunoprecipitation (ChIP) with anti-CENH3 antibody followed by pyrosequencing. These two centromeres differ substantially in size, apparent CENH3 density, and arrangement of centromeric repeats; and they are larger than the rice centromeres characterized to date. Furthermore, centromere 5 consists of two distinct CENH3 domains that are separated by several megabases. Succession of centromere repeat classes is evidenced by the fact that elements belonging to the recently active recombinant subgroups of CRM1 colonize the present day centromeres, while elements of the ancestral subgroups are also found in the flanking regions. Using abundant CRM and non-CRM retrotransposons that inserted in and near these two centromeres to create a historical record of centromere location, we show that maize centromeres are fluid genomic regions whose borders are heavily influenced by the interplay of retrotransposons and epigenetic marks. Furthermore, we propose that CRMs may be involved in removal of centromeric DNA (specifically CentC), invasion of centromeres by non-CRM retrotransposons, and local repositioning of the CENH3. PMID:19956743

Mapping dietary habits may provide clues about the factors that determine food choice.

PubMed

Hackett, A; Boddy, L; Boothby, J; Dummer, T J B; Johnson, B; Stratton, G

2008-10-01

Food deserts are thought to be a barrier to making healthier food choices. This concept has been challenged. The interaction between the physical environment and children's food choice has received little attention. The present study used food intake data to generate hypotheses concerning the role of the physical environment in food choice. A cross-sectional analysis was conducted of the dietary habits of Year 5 (9-10-year-old) children from 90 of Liverpool's 118 primary schools. Individuals with the 'best' and 'worst' food choices were mapped and two areas associated with these extreme choices located. One thousand five hundred and thirty-five children completed the dietary questionnaire and supplied a full and valid postcode. Two adjacent areas with relatively large numbers of children in the 'best' and 'worst' food choice groups were chosen. Both areas had very similar socio-economic profiles. The contrast in the physical environments was striking, even on visual inspection. Food deserts as a cause of poor food choice did not stand scrutiny; the area located by the worst food choices had a plethora of shops selling food (better termed a food prairie), whereas the area located by the best food choices had no shops in evidence but did have more 'space'.

A revised “earthquake report” questionaire

USGS Publications Warehouse

Stover, C.; Reagor, G.; Simon, R.

1976-01-01

The U.S geological Survey is responsible for conducting intensity and damage surveys following felt or destructive earthquakes in the United States. Shortly after a felt or damaging earthquake occurs, a canvass of the affected area is made. Specially developed questionnaires are mailed to volunteer observers located within the estimated felt area. These questionnaires, "Earthquake Reports," are filled out by the observers and returned to the Survey's National Earthquake Information Service, which is located in Colorado. They are then evaluated, and, based on answers to questions about physical effects seen or felt, each canvassed location is assigned to the various locations, they are plotted on an intensity distribution map. When all of the intensity data have been plotted, isoseismals can then be contoured through places where equal intensity was experienced. The completed isoseismal map yields a detailed picture of the earthquake, its effects, and its felt area. All of the data and maps are published quarterly in a U.S Geological Survey Circular series entitled "Earthquakes in the United States".  

Preliminary surficial geologic map database of the Amboy 30 x 60 minute quadrangle, California

USGS Publications Warehouse

Bedford, David R.; Miller, David M.; Phelps, Geoffrey A.

2006-01-01

The surficial geologic map database of the Amboy 30x60 minute quadrangle presents characteristics of surficial materials for an area approximately 5,000 km2 in the eastern Mojave Desert of California. This map consists of new surficial mapping conducted between 2000 and 2005, as well as compilations of previous surficial mapping. Surficial geology units are mapped and described based on depositional process and age categories that reflect the mode of deposition, pedogenic effects occurring post-deposition, and, where appropriate, the lithologic nature of the material. The physical properties recorded in the database focus on those that drive hydrologic, biologic, and physical processes such as particle size distribution (PSD) and bulk density. This version of the database is distributed with point data representing locations of samples for both laboratory determined physical properties and semi-quantitative field-based information. Future publications will include the field and laboratory data as well as maps of distributed physical properties across the landscape tied to physical process models where appropriate. The database is distributed in three parts: documentation, spatial map-based data, and printable map graphics of the database. Documentation includes this file, which provides a discussion of the surficial geology and describes the format and content of the map data, a database 'readme' file, which describes the database contents, and FGDC metadata for the spatial map information. Spatial data are distributed as Arc/Info coverage in ESRI interchange (e00) format, or as tabular data in the form of DBF3-file (.DBF) file formats. Map graphics files are distributed as Postscript and Adobe Portable Document Format (PDF) files, and are appropriate for representing a view of the spatial database at the mapped scale.

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

PubMed Central

2010-01-01

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 construction of single-chromosome BAC libraries. Conclusions The negligibly low level of incorporation of clones from homoeologous chromosome arms into a contig during contig assembly suggested that it is feasible to construct contigs and physical maps using global BAC libraries of wheat and almost certainly also of other plant polyploid species with genome sizes comparable to that of wheat. Because of the high purity of the resulting assembled contigs, they can be directly used for genome sequencing. It is currently unknown but possible that equally good BAC contigs can be also constructed for polyploid species containing smaller, more gene-rich genomes. PMID:20170511

Absolute continuity for operator valued completely positive maps on C∗-algebras

NASA Astrophysics Data System (ADS)

Gheondea, Aurelian; Kavruk, Ali Şamil

2009-02-01

Motivated by applicability to quantum operations, quantum information, and quantum probability, we investigate the notion of absolute continuity for operator valued completely positive maps on C∗-algebras, previously introduced by Parthasarathy [in Athens Conference on Applied Probability and Time Series Analysis I (Springer-Verlag, Berlin, 1996), pp. 34-54]. We obtain an intrinsic definition of absolute continuity, we show that the Lebesgue decomposition defined by Parthasarathy is the maximal one among all other Lebesgue-type decompositions and that this maximal Lebesgue decomposition does not depend on the jointly dominating completely positive map, we obtain more flexible formulas for calculating the maximal Lebesgue decomposition, and we point out the nonuniqueness of the Lebesgue decomposition as well as a sufficient condition for uniqueness. In addition, we consider Radon-Nikodym derivatives for absolutely continuous completely positive maps that, in general, are unbounded positive self-adjoint operators affiliated to a certain von Neumann algebra, and we obtain a spectral approximation by bounded Radon-Nikodym derivatives. An application to the existence of the infimum of two completely positive maps is indicated, and formulas in terms of Choi's matrices for the Lebesgue decomposition of completely positive maps in matrix algebras are obtained.

Geologic mapping of Argyre Planitia

NASA Technical Reports Server (NTRS)

Gorsline, Donn S.; Parker, Timothy J.

1995-01-01

This report describes the results from the geologic mapping of the central and southern Argyre basin of Mars. At the Mars Geologic Mapper's Meeting in Flagstaff during July, 1993, Dave Scott (United States Geological Survey, Mars Geologic Mapping Steering Committee Chair) recommended that all four quadrangles be combined into a single 1:1,000,000 scale map for publication. It was agreed that this would be cost-effective and that the decrease in scale would not compromise the original science goals of the mapping. Tim Parker completed mapping on the 1:500,000 scale base maps, for which all the necessary materials had already been produced, and included the work as a chapter in his dissertation, which was completed in the fall of 1994. Geologic mapping of the two southernmost quadrangles (MTM -55036 and MTM -55043; MTM=Mars Transverse Mercator) was completed as planned during the first year of work. These maps and a detailed draft of the map text were given a preliminary review by Dave Scott during summer, 1993. Geologic mapping of the remaining two quadrangles (MTM -50036 and MTM -50043) was completed by summer, 1994. Results were described at the Mars Geologic Mappers Meeting, held in Pocatello, Idaho, during July, 1994. Funds for the third and final year of the project have been transferred to the Jet Propulsion Laboratory, where Tim Parker will revise and finalize all maps and map text for publication by the United States Geological Survey at the 1:1,000,000 map scale.

Using Playground Maps for Movement

ERIC Educational Resources Information Center

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…

Construction of an ultra-high density consensus genetic map, and enhancement of the physical map from genome sequencing in Lupinus angustifolius.

PubMed

Zhou, Gaofeng; Jian, Jianbo; Wang, Penghao; Li, Chengdao; Tao, Ye; Li, Xuan; Renshaw, Daniel; Clements, Jonathan; Sweetingham, Mark; Yang, Huaan

2018-01-01

An ultra-high density genetic map containing 34,574 sequence-defined markers was developed in Lupinus angustifolius. Markers closely linked to nine genes of agronomic traits were identified. A physical map was improved to cover 560.5 Mb genome sequence. Lupin (Lupinus angustifolius L.) is a recently domesticated legume grain crop. In this study, we applied the restriction-site associated DNA sequencing (RADseq) method to genotype an F 9 recombinant inbred line population derived from a wild type × domesticated cultivar (W × D) cross. A high density linkage map was developed based on the W × D population. By integrating sequence-defined DNA markers reported in previous mapping studies, we established an ultra-high density consensus genetic map, which contains 34,574 markers consisting of 3508 loci covering 2399 cM on 20 linkage groups. The largest gap in the entire consensus map was 4.73 cM. The high density W × D map and the consensus map were used to develop an improved physical map, which covered 560.5 Mb of genome sequence data. The ultra-high density consensus linkage map, the improved physical map and the markers linked to genes of breeding interest reported in this study provide a common tool for genome sequence assembly, structural genomics, comparative genomics, functional genomics, QTL mapping, and molecular plant breeding in lupin.

Connecting Projects to Complete the In Situ Resource Utilization Paradigm

NASA Technical Reports Server (NTRS)

Linne, Diane L.; Sanders, Gerald B.

2017-01-01

Terrain Identify specifics such as slope, rockiness, traction parameters Identify what part of ISRU needs each Physical Geotechnical Hardness, density, cohesion, etc. Identify what part of ISRU needs each (e.g., excavation needs to know hardness, density; soil processing needs to know density, cohesion; etc.)Mineral Identify specifics Identify what part of ISRU needs each Volatile Identify specifics Identify what part of ISRU needs each Atmosphere Identify specifics Identify what part of ISRU needs each Environment Identify specifics Identify what part of ISRU needs each Resource Characterization What: Develop an instrument suite to locate and evaluate the physical, mineral, and volatile resources at the lunar poles Neutron Spectrometer Near Infrared (IR) to locate subsurface hydrogen surface water Near IR for mineral identification Auger drill for sample removal down to 1 m Oven with Gas Chromatograph Mass Spectrometer to quantify volatiles present ISRU relevance: Water volatile resource characterization and subsurface material access removal Site Evaluation Resource Mapping What: Develop and utilize new data products and tools for evaluating potential exploration sites for selection and overlay mission data to map terrain, environment, and resource information e.g., New techniques applied to generate Digital Elevation Map (DEMs) at native scale of images (1mpxl)ISRU relevance: Resource mapping and estimation with terrain and environment information is needed for extraction planning Mission Planning and Operations What: Develop and utilize tools and procedures for planning mission operations and real time changes Planning tools include detailed engineering models (e.g., power and data) of surface segment systems allows evaluation of designs ISRU relevance: Allows for iterative engineering as a function of environment and hardware performance.

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

PubMed

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.

Plant Genome Resources at the National Center for Biotechnology Information

PubMed Central

Wheeler, David L.; Smith-White, Brian; Chetvernin, Vyacheslav; Resenchuk, Sergei; Dombrowski, Susan M.; Pechous, Steven W.; Tatusova, Tatiana; Ostell, James

2005-01-01

The National Center for Biotechnology Information (NCBI) integrates data from more than 20 biological databases through a flexible search and retrieval system called Entrez. A core Entrez database, Entrez Nucleotide, includes GenBank and is tightly linked to the NCBI Taxonomy database, the Entrez Protein database, and the scientific literature in PubMed. A suite of more specialized databases for genomes, genes, gene families, gene expression, gene variation, and protein domains dovetails with the core databases to make Entrez a powerful system for genomic research. Linked to the full range of Entrez databases is the NCBI Map Viewer, which displays aligned genetic, physical, and sequence maps for eukaryotic genomes including those of many plants. A specialized plant query page allow maps from all plant genomes covered by the Map Viewer to be searched in tandem to produce a display of aligned maps from several species. PlantBLAST searches against the sequences shown in the Map Viewer allow BLAST alignments to be viewed within a genomic context. In addition, precomputed sequence similarities, such as those for proteins offered by BLAST Link, enable fluid navigation from unannotated to annotated sequences, quickening the pace of discovery. NCBI Web pages for plants, such as Plant Genome Central, complete the system by providing centralized access to NCBI's genomic resources as well as links to organism-specific Web pages beyond NCBI. PMID:16010002

Modeling Leadership Styles in Human-Robot Team Dynamics

NASA Technical Reports Server (NTRS)

Cruz, Gerardo E.

2005-01-01

The recent proliferation of robotic systems in our society has placed questions regarding interaction between humans and intelligent machines at the forefront of robotics research. In response, our research attempts to understand the context in which particular types of interaction optimize efficiency in tasks undertaken by human-robot teams. It is our conjecture that applying previous research results regarding leadership paradigms in human organizations will lead us to a greater understanding of the human-robot interaction space. In doing so, we adapt four leadership styles prevalent in human organizations to human-robot teams. By noting which leadership style is more appropriately suited to what situation, as given by previous research, a mapping is created between the adapted leadership styles and human-robot interaction scenarios-a mapping which will presumably maximize efficiency in task completion for a human-robot team. In this research we test this mapping with two adapted leadership styles: directive and transactional. For testing, we have taken a virtual 3D interface and integrated it with a genetic algorithm for use in &le-operation of a physical robot. By developing team efficiency metrics, we can determine whether this mapping indeed prescribes interaction styles that will maximize efficiency in the teleoperation of a robot.

Whole genome comparative studies between chicken and turkey and their implications for avian genome evolution

PubMed Central

Griffin, Darren K; Robertson, Lindsay B; Tempest, Helen G; Vignal, Alain; Fillon, Valérie; Crooijmans, Richard PMA; Groenen, Martien AM; Deryusheva, Svetlana; Gaginskaya, Elena; Carré, Wilfrid; Waddington, David; Talbot, Richard; Völker, Martin; Masabanda, Julio S; Burt, Dave W

2008-01-01

Background Comparative genomics is a powerful means of establishing inter-specific relationships between gene function/location and allows insight into genomic rearrangements, conservation and evolutionary phylogeny. The availability of the complete sequence of the chicken genome has initiated the development of detailed genomic information in other birds including turkey, an agriculturally important species where mapping has hitherto focused on linkage with limited physical information. No molecular study has yet examined conservation of avian microchromosomes, nor differences in copy number variants (CNVs) between birds. Results We present a detailed comparative cytogenetic map between chicken and turkey based on reciprocal chromosome painting and mapping of 338 chicken BACs to turkey metaphases. Two inter-chromosomal changes (both involving centromeres) and three pericentric inversions have been identified between chicken and turkey; and array CGH identified 16 inter-specific CNVs. Conclusion This is the first study to combine the modalities of zoo-FISH and array CGH between different avian species. The first insight into the conservation of microchromosomes, the first comparative cytogenetic map of any bird and the first appraisal of CNVs between birds is provided. Results suggest that avian genomes have remained relatively stable during evolution compared to mammalian equivalents. PMID:18410676

Is Your Neighborhood Designed to Support Physical Activity? A Brief Streetscape Audit Tool.

PubMed

Sallis, James F; Cain, Kelli L; Conway, Terry L; Gavand, Kavita A; Millstein, Rachel A; Geremia, Carrie M; Frank, Lawrence D; Saelens, Brian E; Glanz, Karen; King, Abby C

2015-09-03

Macro level built environment factors (eg, street connectivity, walkability) are correlated with physical activity. Less studied but more modifiable microscale elements of the environment (eg, crosswalks) may also affect physical activity, but short audit measures of microscale elements are needed to promote wider use. This study evaluated the relation of a 15-item neighborhood environment audit tool with a full version of the tool to assess neighborhood design on physical activity in 4 age groups. From the 120-item Microscale Audit of Pedestrian Streetscapes (MAPS) measure of street design, sidewalks, and street crossings, we developed the 15-item version (MAPS-Mini) on the basis of associations with physical activity and attribute modifiability. As a sample of a likely walking route, MAPS-Mini was conducted on a 0.25-mile route from participant residences toward the nearest nonresidential destination for children (n = 758), adolescents (n = 897), younger adults (n = 1,655), and older adults (n = 367). Active transportation and leisure physical activity were measured with age-appropriate surveys, and accelerometers provided objective physical activity measures. Mixed-model regressions were conducted for each MAPS item and a total environment score, adjusted for demographics, participant clustering, and macrolevel walkability. Total scores of MAPS-Mini and the 120-item MAPS correlated at r = .85. Total microscale environment scores were significantly related to active transportation in all age groups. Items related to active transport in 3 age groups were presence of sidewalks, curb cuts, street lights, benches, and buffer between street and sidewalk. The total score was related to leisure physical activity and accelerometer measures only in children. The MAPS-Mini environment measure is short enough to be practical for use by community groups and planning agencies and is a valid substitute for the full version that is 8 times longer.

Construction of a high-density, high-resolution genetic map and its integration with BAC-based physical map in channel catfish

PubMed Central

Li, Yun; Liu, Shikai; Qin, Zhenkui; Waldbieser, Geoff; Wang, Ruijia; Sun, Luyang; Bao, Lisui; Danzmann, Roy G.; Dunham, Rex; Liu, Zhanjiang

2015-01-01

Construction of genetic linkage map is essential for genetic and genomic studies. Recent advances in sequencing and genotyping technologies made it possible to generate high-density and high-resolution genetic linkage maps, especially for the organisms lacking extensive genomic resources. In the present work, we constructed a high-density and high-resolution genetic map for channel catfish with three large resource families genotyped using the catfish 250K single-nucleotide polymorphism (SNP) array. A total of 54,342 SNPs were placed on the linkage map, which to our knowledge had the highest marker density among aquaculture species. The estimated genetic size was 3,505.4 cM with a resolution of 0.22 cM for sex-averaged genetic map. The sex-specific linkage maps spanned a total of 4,495.1 cM in females and 2,593.7 cM in males, presenting a ratio of 1.7 : 1 between female and male in recombination fraction. After integration with the previously established physical map, over 87% of physical map contigs were anchored to the linkage groups that covered a physical length of 867 Mb, accounting for ∼90% of the catfish genome. The integrated map provides a valuable tool for validating and improving the catfish whole-genome assembly and facilitates fine-scale QTL mapping and positional cloning of genes responsible for economically important traits. PMID:25428894

The Dunhuang Chinese sky: A comprehensive study of the oldest known star atlas

NASA Astrophysics Data System (ADS)

Bonnet-Bidaud, Jean-Marc; Praderie, Françoise; Whitfield, Susan

2009-03-01

This paper presents an analysis of the star atlas included in the medieval Chinese manuscript Or.8210/S.3326 discovered in 1907 by the archaeologist Aurel Stein at the Silk Road town of Dunhuang and now housed in the British Library. Although partially studied by a few Chinese scholars, it has never been fully displayed and discussed in the Western world. This set of sky maps (12 hour-angle maps in quasi-cylindrical projection and a circumpolar map in azimuthal projection), displaying the full sky visible from the Northern Hemisphere, is up to now the oldest complete preserved star atlas known from any civilisation. It is also the earliest known pictorial representation of the quasi-totality of Chinese constellations. This paper describes the history of the physical object - a roll of thin paper drawn with ink. We analyse the stellar content of each map (1,339 stars, 257 asterisms) and the texts associated with the maps. We establish the precision with which the maps were drawn (1.5-4° for the brightest stars) and examine the type of projections used. We conclude that precise mathematical methods were used to produce the Atlas. We also discuss the dating of the manuscript and its possible author, and we confirm the date +649-684 (early Tang Dynasty) as most probable based on the available evidence. This is at variance with a prior estimate of around +940. Finally, we present a brief comparison with later sky maps, both from China and Europe.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Willard, H.F.; Cremers, F.; Mandel, J.L.

A high-quality integrated genetic and physical map of the X chromosome from telomere to telomere, based primarily on YACs formatted with probes and STSs, is increasingly close to reality. At the Fifth International X Chromosome Workshop, organized by A.M. Poustka and D. Schlessinger in Heidelberg, Germany, April 24--27, 1994, substantial progress was recorded on extension and refinement of the physical map, on the integration of genetic and cytogenetic data, on attempts to use the map to direct gene searches, and on nascent large-scale sequencing efforts. This report summarizes physical and genetic mapping information presented at the workshop and/or published sincemore » the reports of the fourth International X Chromosome Workshop. The principle aim of the workshop was to derive a consensus map of the chromosome, in terms of physical contigs emphasizing the location of genes and microsatellite markers. The resulting map is presented and updates previous versions. This report also updates the list of highly informative microsatellites. The text highlights the working state of the map, the genes known to reside on the X, and the progress toward integration of various types of data.« less

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

ERIC Educational Resources Information Center

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…

The Allen Telescope Array

NASA Astrophysics Data System (ADS)

DeBoer, David R.; Welch, William J.; Dreher, John; Tarter, Jill; Blitz, Leo; Davis, Michael; Fleming, Matt; Bock, Douglas; Bower, Geoffrey; Lugten, John; Girmay-Keleta, G.; D'Addario, Larry R.; Harp, Gerry R.; Ackermann, Rob; Weinreb, Sander; Engargiola, Greg; Thornton, Doug; Wadefalk, Niklas

2004-10-01

The Allen Telescope Array, originally called the One Hectare Telescope (1hT) [1] will be a large array radio telescope whose novel characteristics will be a wide field of view (3.5 deg-GHz HPBW), continuous frequency coverage of 0.5 - 11 GHz, four dual-linear polarization output bands of 100 MHz each, four beams in each band, two 100 MHz spectral correlators for two of the bands, and hardware for RFI mitigation built in. Its scientific motivation is for deep SETI searches and, at the same time, a variety of other radio astronomy projects, including transient (e.g. pulsar) studies, HI mapping of the Milky Way and nearby galaxies, Zeeman studies of the galactic magnetic field in a number of transitions, mapping of long chain molecules in molecular clouds, mapping of the decrement in the cosmic background radiation toward galaxy clusters, and observation of HI absorption toward quasars at redshifts up to z=2. The array is planned for 350 6.1-meter dishes giving a physical collecting area of about 10,000 square meters. The large number of components reduces the price with economies of scale. The front end receiver is a single cryogenically cooled MIMIC Low Noise Amplifier covering the whole band. The feed is a wide-band log periodic feed of novel design, and the reflector system is an offset Gregorian for minimum sidelobes and spillover. All preliminary and critical design reviews have been completed. Three complete antennas with feeds and receivers are under test, and an array of 33 antennas is under construction at the Hat Creek Radio Observatory for the end of 2004. The present plan is to have a total of about 200 antennas completed by the summer of 2006 and the balance of the array finished before the end of the decade.

Correlation of physical and genetic maps of human chromosome 16

DOE Office of Scientific and Technical Information (OSTI.GOV)

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 potentiallymore » 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.« less

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

DOE Office of Scientific and Technical Information (OSTI.GOV)

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 potentiallymore » 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.« less

Physical and in silico approaches identify DNA-PK in a Tax DNA-damage response interactome

PubMed Central

Ramadan, Emad; Ward, Michael; Guo, Xin; Durkin, Sarah S; Sawyer, Adam; Vilela, Marcelo; Osgood, Christopher; Pothen, Alex; Semmes, Oliver J

2008-01-01

Background We have initiated an effort to exhaustively map interactions between HTLV-1 Tax and host cellular proteins. The resulting Tax interactome will have significant utility toward defining new and understanding known activities of this important viral protein. In addition, the completion of a full Tax interactome will also help shed light upon the functional consequences of these myriad Tax activities. The physical mapping process involved the affinity isolation of Tax complexes followed by sequence identification using tandem mass spectrometry. To date we have mapped 250 cellular components within this interactome. Here we present our approach to prioritizing these interactions via an in silico culling process. Results We first constructed an in silico Tax interactome comprised of 46 literature-confirmed protein-protein interactions. This number was then reduced to four Tax-interactions suspected to play a role in DNA damage response (Rad51, TOP1, Chk2, 53BP1). The first-neighbor and second-neighbor interactions of these four proteins were assembled from available human protein interaction databases. Through an analysis of betweenness and closeness centrality measures, and numbers of interactions, we ranked proteins in the first neighborhood. When this rank list was compared to the list of physical Tax-binding proteins, DNA-PK was the highest ranked protein common to both lists. An overlapping clustering of the Tax-specific second-neighborhood protein network showed DNA-PK to be one of three bridge proteins that link multiple clusters in the DNA damage response network. Conclusion The interaction of Tax with DNA-PK represents an important biological paradigm as suggested via consensus findings in vivo and in silico. We present this methodology as an approach to discovery and as a means of validating components of a consensus Tax interactome. PMID:18922151

High-resolution physical and functional mapping of the template adjacent DNA binding site in catalytically active telomerase.

PubMed

Romi, Erez; Baran, Nava; Gantman, Marina; Shmoish, Michael; Min, Bosun; Collins, Kathleen; Manor, Haim

2007-05-22

Telomerase is a cellular reverse transcriptase, which utilizes an integral RNA template to extend single-stranded telomeric DNA. We used site-specific photocrosslinking to map interactions between DNA primers and the catalytic protein subunit (tTERT) of Tetrahymena thermophila telomerase in functional enzyme complexes. Our assays reveal contact of the single-stranded DNA adjacent to the primer-template hybrid and tTERT residue W187 at the periphery of the N-terminal domain. This contact was detected in complexes with three different registers of template in the active site, suggesting that it is maintained throughout synthesis of a complete telomeric repeat. Substitution of nearby residue Q168, but not W187, alters the K(m) for primer elongation, implying that it plays a role in the DNA recognition. These findings are the first to directly demonstrate the physical location of TERT-DNA contacts in catalytically active telomerase and to identify amino acid determinants of DNA binding affinity. Our data also suggest a movement of the TERT active site relative to the template-adjacent single-stranded DNA binding site within a cycle of repeat synthesis.

Map of physics

NASA Astrophysics Data System (ADS)

2008-10-01

Based on bibliometric data from information-services provider Thomson Reuters, this map reveals "core areas" of physics, shown as coloured circular nodes, and the relationship between these subdisciplines, shown as lines.

Global Genomic Diversity of Oryza sativa Varieties Revealed by Comparative Physical Mapping

PubMed Central

Wang, Xiaoming; Kudrna, David A.; Pan, Yonglong; Wang, Hao; Liu, Lin; Lin, Haiyan; Zhang, Jianwei; Song, Xiang; Goicoechea, Jose Luis; Wing, Rod A.; Zhang, Qifa; Luo, Meizhong

2014-01-01

Bacterial artificial chromosome (BAC) physical maps embedding a large number of BAC end sequences (BESs) were generated for Oryza sativa ssp. indica varieties Minghui 63 (MH63) and Zhenshan 97 (ZS97) and were compared with the genome sequences of O. sativa spp. japonica cv. Nipponbare and O. sativa ssp. indica cv. 93-11. The comparisons exhibited substantial diversities in terms of large structural variations and small substitutions and indels. Genome-wide BAC-sized and contig-sized structural variations were detected, and the shared variations were analyzed. In the expansion regions of the Nipponbare reference sequence, in comparison to the MH63 and ZS97 physical maps, as well as to the previously constructed 93-11 physical map, the amounts and types of the repeat contents, and the outputs of gene ontology analysis, were significantly different from those of the whole genome. Using the physical maps of four wild Oryza species from OMAP (http://www.omap.org) as a control, we detected many conserved and divergent regions related to the evolution process of O. sativa. Between the BESs of MH63 and ZS97 and the two reference sequences, a total of 1532 polymorphic simple sequence repeats (SSRs), 71,383 SNPs, 1767 multiple nucleotide polymorphisms, 6340 insertions, and 9137 deletions were identified. This study provides independent whole-genome resources for intra- and intersubspecies comparisons and functional genomics studies in O. sativa. Both the comparative physical maps and the GBrowse, which integrated the QTL and molecular markers from GRAMENE (http://www.gramene.org) with our physical maps and analysis results, are open to the public through our Web site (http://gresource.hzau.edu.cn/resource/resource.html). PMID:24424778

The chimeric mapping problem: algorithmic strategies and performance evaluation on synthetic genomic data.

PubMed

Greenberg, D; Istrail, S

1994-09-01

The Human Genome Project requires better software for the creation of physical maps of chromosomes. Current mapping techniques involve breaking large segments of DNA into smaller, more-manageable pieces, gathering information on all the small pieces, and then constructing a map of the original large piece from the information about the small pieces. Unfortunately, in the process of breaking up the DNA some information is lost and noise of various types is introduced; in particular, the order of the pieces is not preserved. Thus, the map maker must solve a combinatorial problem in order to reconstruct the map. Good software is indispensable for quick, accurate reconstruction. The reconstruction is complicated by various experimental errors. A major source of difficulty--which seems to be inherent to the recombination technology--is the presence of chimeric DNA clones. It is fairly common for two disjoint DNA pieces to form a chimera, i.e., a fusion of two pieces which appears as a single piece. Attempts to order chimera will fail unless they are algorithmically divided into their constituent pieces. Despite consensus within the genomic mapping community of the critical importance of correcting chimerism, algorithms for solving the chimeric clone problem have received only passing attention in the literature. Based on a model proposed by Lander (1992a, b) this paper presents the first algorithms for analyzing chimerism. We construct physical maps in the presence of chimerism by creating optimization functions which have minimizations which correlate with map quality. Despite the fact that these optimization functions are invariably NP-complete our algorithms are guaranteed to produce solutions which are close to the optimum. The practical import of using these algorithms depends on the strength of the correlation of the function to the map quality as well as on the accuracy of the approximations. We employ two fundamentally different optimization functions as a means of avoiding biases likely to decorrelate the solutions from the desired map. Experiments on simulated data show that both our algorithm which minimizes the number of chimeric fragments in a solution and our algorithm which minimizes the maximum number of fragments per clone in a solution do, in fact, correlate to high quality solutions. Furthermore, tests on simulated data using parameters set to mimic real experiments show that that the algorithms have the potential to find high quality solutions with real data. We plan to test our software against real data from the Whitehead Institute and from Los Alamos Genomic Research Center in the near future.

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

ERIC Educational Resources Information Center

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…

Conceptual change in pre-service science teachers' views on nature of science when learning a unit on the physics of waves

NASA Astrophysics Data System (ADS)

Kattoula, Ehsan Habib

Recent reform efforts in science education have culminated in National Science Education Standards (NSES), which include the nature of science and science inquiry themes across all grade levels. Consideration must be given to pre-service science teachers' nature of science conceptions and their perceived roles in implementing the nature of science in the science classroom. This qualitative study investigates how pre-service science teachers' views about the nature of science develop and change when learning a college physics unit on waves in an urban university. The study uses case study methodology with four pre-service science teachers as individual units of analysis. Data regarding the participants' views about the nature of science were collected before and after the instruction on the physics of waves unit. The research design used 'The Views of Nature of Science/Views of Scientific Inquiry-Physics Questionnaire' followed by structured interviews throughout the wave unit. In addition, the participants responded to daily questions that incorporated nature of science themes and constructed concept maps regarding the physics content and their nature of science understanding. After completing the VNOS/VOSI-PHYS questionnaire the pre-service science teachers' views of the nature of science were found to be mainly naive and transitional before the instruction. At the end of the wave unit instruction, the data indicated that conceptual change occurred in participants' nature of science views, shifting toward informed views. The findings of this study provide evidence that using explicit instruction with specific activities, such as experiments and concept mapping, shifted the pre-service science teachers' views away from naive and toward informed.

Constructing a 'Chromonome' of Yellowtail (Seriola quinqueradiata) for Comparative Analysis of Chromosomal Rearrangements

PubMed Central

Kawase, Junya; Aoki, Jun-ya; Araki, Kazuo

2018-01-01

To investigate chromosome evolution in fish species, we newly mapped 181 markers that allowed us to construct a yellowtail (Seriola quinqueradiata) radiation hybrid (RH) physical map with 1,713 DNA markers, which was far denser than a previous map, and we anchored the de novo assembled sequences onto the RH physical map. Finally, we mapped a total of 13,977 expressed sequence tags (ESTs) on a genome sequence assembly aligned with the physical map. Using the high-density physical map and anchored genome sequences, we accurately compared the yellowtail genome structure with the genome structures of five model fishes to identify characteristics of the yellowtail genome. Between yellowtail and Japanese medaka (Oryzias latipes), almost all regions of the chromosomes were conserved and some blocks comprising several markers were translocated. Using the genome information of the spotted gar (Lepisosteus oculatus) as a reference, we further documented syntenic relationships and chromosomal rearrangements that occurred during evolution in four other acanthopterygian species (Japanese medaka, zebrafish, spotted green pufferfish and three-spined stickleback). The evolutionary chromosome translocation frequency was 1.5-2-times higher in yellowtail than in medaka, pufferfish, and stickleback. PMID:29290830

Genome-wide recombination rate variation in a recombination map of cotton.

PubMed

Shen, Chao; Li, Ximei; Zhang, Ruiting; Lin, Zhongxu

2017-01-01

Recombination is crucial for genetic evolution, which not only provides new allele combinations but also influences the biological evolution and efficacy of natural selection. However, recombination variation is not well understood outside of the complex species' genomes, and it is particularly unclear in Gossypium. Cotton is the most important natural fibre crop and the second largest oil-seed crop. Here, we found that the genetic and physical maps distances did not have a simple linear relationship. Recombination rates were unevenly distributed throughout the cotton genome, which showed marked changes along the chromosome lengths and recombination was completely suppressed in the centromeric regions. Recombination rates significantly varied between A-subgenome (At) (range = 1.60 to 3.26 centimorgan/megabase [cM/Mb]) and D-subgenome (Dt) (range = 2.17 to 4.97 cM/Mb), which explained why the genetic maps of At and Dt are similar but the physical map of Dt is only half that of At. The translocation regions between A02 and A03 and between A04 and A05, and the inversion regions on A10, D10, A07 and D07 indicated relatively high recombination rates in the distal regions of the chromosomes. Recombination rates were positively correlated with the densities of genes, markers and the distance from the centromere, and negatively correlated with transposable elements (TEs). The gene ontology (GO) categories showed that genes in high recombination regions may tend to response to environmental stimuli, and genes in low recombination regions are related to mitosis and meiosis, which suggested that they may provide the primary driving force in adaptive evolution and assure the stability of basic cell cycle in a rapidly changing environment. Global knowledge of recombination rates will facilitate genetics and breeding in cotton.

Genome-wide recombination rate variation in a recombination map of cotton

PubMed Central

Shen, Chao; Li, Ximei; Zhang, Ruiting

2017-01-01

Recombination is crucial for genetic evolution, which not only provides new allele combinations but also influences the biological evolution and efficacy of natural selection. However, recombination variation is not well understood outside of the complex species’ genomes, and it is particularly unclear in Gossypium. Cotton is the most important natural fibre crop and the second largest oil-seed crop. Here, we found that the genetic and physical maps distances did not have a simple linear relationship. Recombination rates were unevenly distributed throughout the cotton genome, which showed marked changes along the chromosome lengths and recombination was completely suppressed in the centromeric regions. Recombination rates significantly varied between A-subgenome (At) (range = 1.60 to 3.26 centimorgan/megabase [cM/Mb]) and D-subgenome (Dt) (range = 2.17 to 4.97 cM/Mb), which explained why the genetic maps of At and Dt are similar but the physical map of Dt is only half that of At. The translocation regions between A02 and A03 and between A04 and A05, and the inversion regions on A10, D10, A07 and D07 indicated relatively high recombination rates in the distal regions of the chromosomes. Recombination rates were positively correlated with the densities of genes, markers and the distance from the centromere, and negatively correlated with transposable elements (TEs). The gene ontology (GO) categories showed that genes in high recombination regions may tend to response to environmental stimuli, and genes in low recombination regions are related to mitosis and meiosis, which suggested that they may provide the primary driving force in adaptive evolution and assure the stability of basic cell cycle in a rapidly changing environment. Global knowledge of recombination rates will facilitate genetics and breeding in cotton. PMID:29176878

Surficial geologic map of the Amboy 30' x 60' quadrangle, San Bernardino County, California

USGS Publications Warehouse

Bedford, David R.; Miller, David M.; Phelps, Geoffrey A.

2010-01-01

The surficial geologic map of the Amboy 30' x 60' quadrangle presents characteristics of surficial materials for an area of approximately 5,000 km2 in the eastern Mojave Desert of southern California. This map consists of new surficial mapping conducted between 2000 and 2007, as well as compilations from previous surficial mapping. Surficial geologic units are mapped and described based on depositional process and age categories that reflect the mode of deposition, pedogenic effects following deposition, and, where appropriate, the lithologic nature of the material. Many physical properties were noted and measured during the geologic mapping. This information was used to classify surficial deposits and to understand their ecological importance. We focus on physical properties that drive hydrologic, biologic, and physical processes such as particle-size distribution (PSD) and bulk density. The database contains point data representing locations of samples for both laboratory determined physical properties and semiquantitative field-based information in the database. We include the locations of all field observations and note the type of information collected in the field to help assist in assessing the quality of the mapping. The publication is separated into three parts: documentation, spatial data, and printable map graphics of the database. Documentation includes this pamphlet, which provides a discussion of the surficial geology and units and the map. Spatial data are distributed as ArcGIS Geodatabase in Microsoft Access format and are accompanied by a readme file, which describes the database contents, and FGDC metadata for the spatial map information. Map graphics files are distributed as Postscript and Adobe Portable Document Format (PDF) files that provide a view of the spatial database at the mapped scale.

An end-to-end X-IFU simulator: constraints on ICM kinematics

NASA Astrophysics Data System (ADS)

Roncarelli, M.; Gaspari, M.; Ettori, S.; Brighenti, F.

2017-10-01

In the next years the study of ICM physics will benefit from a completely new type of oservations made available by the X-IFU microcalorimeter of the ATHENA X-ray telescope. X-IFU will combine energy and spatial resolution (2.5 eV and 5 arcsec) allowing to map line emission and, potentially, to characterise the ICM dynamics with an unprecedented detail. I will present an end-to-end simulator aimed at describing the ability of X-IFU to characterise ICM velocity features. Starting from hydrodynamical simulations of ICM turbulence (Gaspari et al. 2013) we went through a detailed and realistic spectral analysis of simulated observations to derive mapped quantities of gas density, temperature, metallicity and, most notably, centroid shift and velocity broadening of the emission lines, with relative errors. Our results show that X-IFU will be able to map in great detail the ICM velocity features and provide precise measurements of the broadening power spectrum. This will provide interesting constraints on the characteristics of turbulent motions, both on large and small scales.

Asset Mapping: A Tool to Enhance Your CSPAP Efforts

ERIC Educational Resources Information Center

Allar, Ishonté; Bulger, Sean

2018-01-01

Comprehensive school physical activity programs (CSPAPs) are one way to help students achieve most, if not all, of the recommended 60 minutes of daily moderate-to-vigorous physical activity (MVPA). Early in the process, one can use asset mapping to help enhance CSPAP efforts. Asset maps provide a valuable opportunity to identify potential partners…

Parameter extraction with neural networks

NASA Astrophysics Data System (ADS)

Cazzanti, Luca; Khan, Mumit; Cerrina, Franco

1998-06-01

In semiconductor processing, the modeling of the process is becoming more and more important. While the ultimate goal is that of developing a set of tools for designing a complete process (Technology CAD), it is also necessary to have modules to simulate the various technologies and, in particular, to optimize specific steps. This need is particularly acute in lithography, where the continuous decrease in CD forces the technologies to operate near their limits. In the development of a 'model' for a physical process, we face several levels of challenges. First, it is necessary to develop a 'physical model,' i.e. a rational description of the process itself on the basis of know physical laws. Second, we need an 'algorithmic model' to represent in a virtual environment the behavior of the 'physical model.' After a 'complete' model has been developed and verified, it becomes possible to do performance analysis. In many cases the input parameters are poorly known or not accessible directly to experiment. It would be extremely useful to obtain the values of these 'hidden' parameters from experimental results by comparing model to data. This is particularly severe, because the complexity and costs associated with semiconductor processing make a simple 'trial-and-error' approach infeasible and cost- inefficient. Even when computer models of the process already exists, obtaining data through simulations may be time consuming. Neural networks (NN) are powerful computational tools to predict the behavior of a system from an existing data set. They are able to adaptively 'learn' input/output mappings and to act as universal function approximators. In this paper we use artificial neural networks to build a mapping from the input parameters of the process to output parameters which are indicative of the performance of the process. Once the NN has been 'trained,' it is also possible to observe the process 'in reverse,' and to extract the values of the inputs which yield outputs with desired characteristics. Using this method, we can extract optimum values for the parameters and determine the process latitude very quickly.

Tectonic evaluation of the Nubian shield of Northeastern Sudan using thematic mapper imagery

NASA Technical Reports Server (NTRS)

1986-01-01

Bechtel is nearing completion of a one-year program that uses digitally enhanced LANDSAT Thematic Mapper (TM) data to compile the first comprehensive regional tectonic map of the Proterozoic Nubian Shield exposed in the northern Red Sea Hills of northeastern Sudan. The status of significant objectives of this study are given. Pertinent published and unpublished geologic literature and maps of the northern Red Sea Hills to establish the geologic framework of the region were reviewed. Thematic mapper imagery for optimal base-map enhancements was processed. Photo mosaics of enhanced images to serve as base maps for compilation of geologic information were completed. Interpretation of TM imagery to define and delineate structural and lithogologic provinces was completed. Geologic information (petrologic, and radiometric data) was compiled from the literature review onto base-map overlays. Evaluation of the tectonic evolution of the Nubian Shield based on the image interpretation and the compiled tectonic maps is continuing.

Gap Analysis of Benthic Mapping at Three National Parks: Assateague Island National Seashore, Channel Islands National Park, and Sleeping Bear Dunes National Lakeshore

USGS Publications Warehouse

Rose, Kathryn V.; Nayegandhi, Amar; Moses, Christopher S.; Beavers, Rebecca; Lavoie, Dawn; Brock, John C.

2012-01-01

The National Park Service (NPS) Inventory and Monitoring (I&M) Program initiated a benthic habitat mapping program in ocean and coastal parks in 2008-2009 in alignment with the NPS Ocean Park Stewardship 2007-2008 Action Plan. With more than 80 ocean and Great Lakes parks encompassing approximately 2.5 million acres of submerged territory and approximately 12,000 miles of coastline (Curdts, 2011), this Servicewide Benthic Mapping Program (SBMP) is essential. This report presents an initial gap analysis of three pilot parks under the SBMP: Assateague Island National Seashore (ASIS), Channel Islands National Park (CHIS), and Sleeping Bear Dunes National Lakeshore (SLBE) (fig. 1). The recommended SBMP protocols include servicewide standards (for example, gap analysis, minimum accuracy, final products) as well as standards that can be adapted to fit network and park unit needs (for example, minimum mapping unit, mapping priorities). The SBMP requires the inventory and mapping of critical components of coastal and marine ecosystems: bathymetry, geoforms, surface geology, and biotic cover. In order for a park unit benthic inventory to be considered complete, maps of bathymetry and other key components must be combined into a final report (Moses and others, 2010). By this standard, none of the three pilot parks are mapped (inventoried) to completion with respect to submerged resources. After compiling the existing benthic datasets for these parks, this report has concluded that CHIS, with 49 percent of its submerged area mapped, has the most complete benthic inventory of the three. The ASIS submerged inventory is 41 percent complete, and SLBE is 17.5 percent complete.

Molecular cytogenetic map of the central bearded dragon, Pogona vitticeps (Squamata: Agamidae).

PubMed

Young, M J; O'Meally, D; Sarre, S D; Georges, A; Ezaz, T

2013-07-01

Reptiles, as the sister group to birds and mammals, are particularly valuable for comparative genomic studies among amniotes. The Australian central bearded dragon (Pogona vitticeps) is being developed as a reptilian model for such comparisons, with whole-genome sequencing near completion. The karyotype consists of 6 pairs of macrochromosomes and 10 pairs microchromosomes (2n = 32), including a female heterogametic ZW sex microchromosome pair. Here, we present a molecular cytogenetic map for P. vitticeps comprising 87 anchor bacterial artificial chromosome clones that together span each macro- and microchromosome. It is the first comprehensive cytogenetic map for any non-avian reptile. We identified an active nucleolus organizer region (NOR) on the sub-telomeric region of 2q by mapping 18S rDNA and Ag-NOR staining. We identified interstitial telomeric sequences in two microchromosome pairs and the W chromosome, indicating that microchromosome fusion has been a mechanism of karyotypic evolution in Australian agamids within the last 21 to 19 million years. Orthology searches against the chicken genome revealed an intrachromosomal rearrangement of P. vitticeps 1q, identified regions orthologous to chicken Z on P. vitticeps 2q, snake Z on P. vitticeps 6q and the autosomal microchromosome pair in P. vitticeps orthologous to turtle Pelodiscus sinensis ZW and lizard Anolis carolinensis XY. This cytogenetic map will be a valuable reference tool for future gene mapping studies and will provide the framework for the work currently underway to physically anchor genome sequences to chromosomes for this model Australian squamate.

Chromosome-level assembly, genetic and physical mapping of Phalaenopsis aphrodite genome provides new insights into species adaptation and resources for orchid breeding.

PubMed

Chao, Ya-Ting; Chen, Wan-Chieh; Chen, Chun-Yi; Ho, Hsiu-Yin; Yeh, Chih-Hsin; Kuo, Yi-Tzu; Su, Chun-Lin; Yen, Shao-Hua; Hsueh, Hao-Yen; Yeh, Jen-Hau; Hsu, Hui-Lan; Tsai, Yi-Hui; Kuo, Tzu-Yen; Chang, Song-Bin; Chen, Kai-Yi; Shih, Ming-Che

2018-04-28

The Orchidaceae is a diverse and ecologically important plant family. Approximately 69% of all orchid species are epiphytes, which provide diverse microhabitats for many small animals and fungi in the canopy of tropical rainforests. Moreover, many orchids are of economic importance as food flavourings or ornamental plants. Phalaenopsis aphrodite, an epiphytic orchid, is a major breeding parent of many commercial orchid hybrids. We provide a high-quality chromosome-scale assembly of the P. aphrodite genome. The total length of all scaffolds is 1025.1 Mb, with N50 scaffold size of 19.7 Mb. A total of 28 902 protein-coding genes were identified. We constructed an orchid genetic linkage map, and then anchored and ordered the genomic scaffolds along the linkage groups. We also established a high-resolution pachytene karyotype of P. aphrodite and completed the assignment of linkage groups to the 19 chromosomes using fluorescence in situ hybridization. We identified an expansion in the epiphytic orchid lineage of FRS5-like subclade associated with adaptations to the life in the canopy. Phylogenetic analysis further provides new insights into the orchid lineage-specific duplications of MADS-box genes, which might have contributed to the variation in labellum and pollinium morphology and its accessory structure. To our knowledge, this is the first orchid genome to be integrated with a SNP-based genetic linkage map and validated by physical mapping. The genome and genetic map not only offer unprecedented resources for increasing breeding efficiency in horticultural orchids but also provide an important foundation for future studies in adaptation genomics of epiphytes. © 2018 The Authors. Plant Biotechnology Journal published by Society for Experimental Biology and The Association of Applied Biologists and John Wiley & Sons Ltd.

Protein interactome analysis of 12 mitogen-activated protein kinase kinase kinase in rice using a yeast two-hybrid system.

PubMed

Singh, Raksha; Lee, Jae-Eun; Dangol, Sarmina; Choi, Jihyun; Yoo, Ran Hee; Moon, Jae Sun; Shim, Jae-Kyung; Rakwal, Randeep; Agrawal, Ganesh Kumar; Jwa, Nam-Soo

2014-01-01

The mitogen-activated protein kinase (MAPK) cascade is composed at least of MAP3K (for MAPK kinase kinase), MAP2K, and MAPK family modules. These components together play a central role in mediating extracellular signals to the cell and vice versa by interacting with their partner proteins. However, the MAP3K-interacting proteins remain poorly investigated in plants. Here, we utilized a yeast two-hybrid system and bimolecular fluorescence complementation in the model crop rice (Oryza sativa) to map MAP3K-interacting proteins. We identified 12 novel nonredundant interacting protein pairs (IPPs) representing 11 nonredundant interactors using 12 rice MAP3Ks (available as full-length cDNA in the rice KOME (http://cdna01.dna.affrc.go.jp/cDNA/) at the time of experimental design and execution) as bait and a rice seedling cDNA library as prey. Of the 12 MAP3Ks, only six had interacting protein partners. The established MAP3K interactome consisted of two kinases, three proteases, two forkhead-associated domain-containing proteins, two expressed proteins, one E3 ligase, one regulatory protein, and one retrotransposon protein. Notably, no MAP3K showed physical interaction with either MAP2K or MAPK. Seven IPPs (58.3%) were confirmed in vivo by bimolecular fluorescence complementation. Subcellular localization of 14 interactors, together involved in nine IPPs (75%) further provide prerequisite for biological significance of the IPPs. Furthermore, GO of identified interactors predicted their involvement in diverse physiological responses, which were supported by a literature survey. These findings increase our knowledge of the MAP3K-interacting proteins, help in proposing a model of MAPK modules, provide a valuable resource for developing a complete map of the rice MAPK interactome, and allow discussion for translating the interactome knowledge to rice crop improvement against environmental factors. © 2013 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Fostering clinical reasoning in physiotherapy: comparing the effects of concept map study and concept map completion after example study in novice and advanced learners.

PubMed

Montpetit-Tourangeau, Katherine; Dyer, Joseph-Omer; Hudon, Anne; Windsor, Monica; Charlin, Bernard; Mamede, Sílvia; van Gog, Tamara

2017-12-01

Health profession learners can foster clinical reasoning by studying worked examples presenting fully worked out solutions to a clinical problem. It is possible to improve the learning effect of these worked examples by combining them with other learning activities based on concept maps. This study investigated which combinaison of activities, worked examples study with concept map completion or worked examples study with concept map study, fosters more meaningful learning of intervention knowledge in physiotherapy students. Moreover, this study compared the learning effects of these learning activity combinations between novice and advanced learners. Sixty-one second-year physiotherapy students participated in the study which included a pre-test phase, a 130-min guided-learning phase and a four-week self-study phase. During the guided and self-study learning sessions, participants had to study three written worked examples presenting the clinical reasoning for selecting electrotherapeutic currents to treat patients with motor deficits. After each example, participants engaged in either concept map completion or concept map study depending on which learning condition they were randomly allocated to. Students participated in an immediate post-test at the end of the guided-learning phase and a delayed post-test at the end of the self-study phase. Post-tests assessed the understanding of principles governing the domain of knowledge to be learned (conceptual knowledge) and the ability to solve new problems that have similar (i.e., near transfer) or different (i.e., far transfer) solution rationales as problems previously studied in the examples. Learners engaged in concept map completion outperformed those engaged in concept map study on near transfer (p = .010) and far transfer (p < .001) performance. There was a significant interaction effect of learners' prior ability and learning condition on conceptual knowledge but not on near and far transfer performance. Worked examples study combined with concept map completion led to greater transfer performance than worked examples study combined with concept map study for both novice and advanced learners. Concept map completion might give learners better insight into what they have and have not yet learned, allowing them to focus on those aspects during subsequent example study.

SfiI genomic cleavage map of Escherichia coli K-12 strain MG1655.

PubMed Central

Perkins, J D; Heath, J D; Sharma, B R; Weinstock, G M

1992-01-01

An SfiI restriction map of Escherichia coli K-12 strain MG1655 is presented. The map contains thirty-one cleavage sites separating fragments ranging in size from 407 kb to 3.7 kb. Several techniques were used in the construction of this map, including CHEF pulsed field gel electrophoresis; physical analysis of a set of twenty-six auxotrophic transposon insertions; correlation with the restriction map of Kohara and coworkers using the commercially available E. coli Gene Mapping Membranes; analysis of publicly available sequence information; and correlation of the above data with the combined genetic and physical map developed by Rudd, et al. The combination of these techniques has yielded a map in which all but one site can be localized within a range of +/- 2 kb, and over half the sites can be localized precisely by sequence data. Two sites present in the EcoSeq5 sequence database are not cleaved in MG1655 and four sites are noted to be sensitive to methylation by the dcm methylase. This map, combined with the NotI physical map of MG1655, can aid in the rapid, precise mapping of several different types of genetic alterations, including transposon mediated mutations and other insertions, inversions, deletions and duplications. Images PMID:1312707

MAP Training My Brain™: Meditation Plus Aerobic Exercise Lessens Trauma of Sexual Violence More Than Either Activity Alone

PubMed Central

Shors, Tracey J.; Chang, Han Y. M.; Millon, Emma M.

2018-01-01

Sexual violence against women often leads to post-traumatic stress disorder (PTSD), a mental illness characterized by intrusive thoughts and memories about the traumatic event (Shors and Millon, 2016). These mental processes are obviously generated by the brain but often felt in the body. MAP Training My Brain™ is a novel clinical intervention that combines mental training of the brain with physical training of the body (Curlik and Shors, 2013; Shors et al., 2014). Each training session begins with 20-min of sitting meditation, followed by 10-min of slow-walking meditation, and ending with 30-min of aerobic exercise at 60–80% of the maximum heart rate (see maptrainmybrain.com). In previous studies, the combination of mental and physical (MAP) training together significantly reduced symptoms of depression and ruminative thoughts, while reducing anxiety (Shors et al., 2014, 2017; Alderman et al., 2016). We also documented positive changes in brain activity during cognitive control and whole-body oxygen consumption in various populations. In the present pilot study, we asked whether the combination of meditation and aerobic exercise during MAP Training would reduce trauma-related thoughts, ruminations, and memories in women and if so, whether the combination would be more effective than either activity alone. To test this hypothesis, interventions were provided to a group of women (n = 105), many of whom had a history of sexual violence (n = 32). Groups were trained with (1) MAP Training, (2) meditation alone, (3) aerobic exercise alone, or (4) not trained. Individuals in training groups completed two sessions a week for at least 6 weeks. MAP Training My Brain™ significantly reduced post-traumatic cognitions and ruminative thoughts in women with a history of sexual violence, whereas meditation alone, and exercise alone did not. MAP Training significantly enhanced a measure of self-worth, whereas meditation and exercise alone did not. Similar positive effects were observed for all participants, although meditation alone was also effective in reducing trauma-related thoughts. Overall, these data indicate the combination of meditation and exercise is synergistic. As a consequence, MAP Training is preferable and especially so for women who have experienced sexual violence in their past. Simply put, the whole is greater than the sum of its parts. PMID:29740264

MAP Training My Brain™: Meditation Plus Aerobic Exercise Lessens Trauma of Sexual Violence More Than Either Activity Alone.

PubMed

Shors, Tracey J; Chang, Han Y M; Millon, Emma M

2018-01-01

Sexual violence against women often leads to post-traumatic stress disorder (PTSD), a mental illness characterized by intrusive thoughts and memories about the traumatic event (Shors and Millon, 2016). These mental processes are obviously generated by the brain but often felt in the body. MAP Training My Brain ™ is a novel clinical intervention that combines mental training of the brain with physical training of the body (Curlik and Shors, 2013; Shors et al., 2014). Each training session begins with 20-min of sitting meditation, followed by 10-min of slow-walking meditation, and ending with 30-min of aerobic exercise at 60-80% of the maximum heart rate (see maptrainmybrain.com). In previous studies, the combination of mental and physical (MAP) training together significantly reduced symptoms of depression and ruminative thoughts, while reducing anxiety (Shors et al., 2014, 2017; Alderman et al., 2016). We also documented positive changes in brain activity during cognitive control and whole-body oxygen consumption in various populations. In the present pilot study, we asked whether the combination of meditation and aerobic exercise during MAP Training would reduce trauma-related thoughts, ruminations, and memories in women and if so, whether the combination would be more effective than either activity alone. To test this hypothesis, interventions were provided to a group of women ( n = 105), many of whom had a history of sexual violence ( n = 32). Groups were trained with (1) MAP Training, (2) meditation alone, (3) aerobic exercise alone, or (4) not trained. Individuals in training groups completed two sessions a week for at least 6 weeks. MAP Training My Brain ™ significantly reduced post-traumatic cognitions and ruminative thoughts in women with a history of sexual violence, whereas meditation alone, and exercise alone did not. MAP Training significantly enhanced a measure of self-worth, whereas meditation and exercise alone did not. Similar positive effects were observed for all participants, although meditation alone was also effective in reducing trauma-related thoughts. Overall, these data indicate the combination of meditation and exercise is synergistic. As a consequence, MAP Training is preferable and especially so for women who have experienced sexual violence in their past. Simply put, the whole is greater than the sum of its parts.

Mapping stairwell accessibility in Vancouver's downtown core.

PubMed

Moore, Erica; Richter, Brian A; Patton, Cindy K; Lear, Scott A

2006-01-01

The increase in obesity is due in part to changes in the environment that affect behaviours such as physical activity. Stairwells in buildings present an opportunity to increase physical activity in the workplace. We characterized the stairwell accessibility in business buildings in the downtown core of Vancouver. Characteristics of the stairwells in business buildings with two or more floors were obtained. Stairwells were characterized based on their visibility from the main entrance, signage, presence of physical door, and interior lighting and space. Building completion year was obtained from the Vancouver City Hall. A total of 138 buildings in the pre-designated area were eligible for characterization. Due to security concerns, only 123 were assessed. Of those assessed, 54% had stairwells visible from the main entrance, 33% had locked doors and only 18% had signs on the stairwell doors. Of the 83 stairwells that were accessible, 54% and 36% were considered brightly lit and spacious enough for two people, respectively. Only 11% of the buildings studied had accessible stairwells that met all of our accessibility criteria. More recently built buildings tended to have a higher proportion of locked stairwell doors; otherwise, building completion year was not associated with any of the accessibility criteria. Based on their environmental characteristics, very few buildings were set up in a way that encouraged stair use. For the work environment to be conducive to increased physical activity, building policy will need to consider the implications of design on activity patterns.

A second generation integrated map of the rainbow trout (Oncorhynchus mykiss) genome: analysis of synteny with model fish genomes

USDA-ARS?s Scientific Manuscript database

In this paper we generated DNA fingerprints and end sequences from bacterial artificial chromosomes (BACs) from two new libraries to improve the first generation integrated physical and genetic map of the rainbow trout (Oncorhynchus mykiss) genome. The current version of the physical map is compose...

Application of Intervention Mapping to the Development of a Complex Physical Therapist Intervention.

PubMed

Jones, Taryn M; Dear, Blake F; Hush, Julia M; Titov, Nickolai; Dean, Catherine M

2016-12-01

Physical therapist interventions, such as those designed to change physical activity behavior, are often complex and multifaceted. In order to facilitate rigorous evaluation and implementation of these complex interventions into clinical practice, the development process must be comprehensive, systematic, and transparent, with a sound theoretical basis. Intervention Mapping is designed to guide an iterative and problem-focused approach to the development of complex interventions. The purpose of this case report is to demonstrate the application of an Intervention Mapping approach to the development of a complex physical therapist intervention, a remote self-management program aimed at increasing physical activity after acquired brain injury. Intervention Mapping consists of 6 steps to guide the development of complex interventions: (1) needs assessment; (2) identification of outcomes, performance objectives, and change objectives; (3) selection of theory-based intervention methods and practical applications; (4) organization of methods and applications into an intervention program; (5) creation of an implementation plan; and (6) generation of an evaluation plan. The rationale and detailed description of this process are presented using an example of the development of a novel and complex physical therapist intervention, myMoves-a program designed to help individuals with an acquired brain injury to change their physical activity behavior. The Intervention Mapping framework may be useful in the development of complex physical therapist interventions, ensuring the development is comprehensive, systematic, and thorough, with a sound theoretical basis. This process facilitates translation into clinical practice and allows for greater confidence and transparency when the program efficacy is investigated. © 2016 American Physical Therapy Association.

The Effectiveness of Concept Maps in Teaching Physics Concepts Applied to Engineering Education: Experimental Comparison of the Amount of Learning Achieved with and without Concept Maps

ERIC Educational Resources Information Center

Martinez, Guadalupe; Perez, Angel Luis; Suero, Maria Isabel; Pardo, Pedro J.

2013-01-01

A study was conducted to quantify the effectiveness of concept maps in learning physics in engineering degrees. The following research question was posed: What was the difference in learning results from the use of concept maps to study a particular topic in an engineering course? The study design was quasi-experimental and used a post-test as a…

Muon Sources for Particle Physics - Accomplishments of the Muon Accelerator Program

DOE Office of Scientific and Technical Information (OSTI.GOV)

Neuffer, D.; Stratakis, D.; Palmer, M.

The Muon Accelerator Program (MAP) completed a four-year study on the feasibility of muon colliders and on using stored muon beams for neutrinos. That study was broadly successful in its goals, establishing the feasibility of lepton colliders from the 125 GeV Higgs Factory to more than 10 TeV, as well as exploring using a μ storage ring (MSR) for neutrinos, and establishing that MSRs could provide factory-level intensities of νe (ν more » $$\\bar{e}$$) and ν $$\\bar{μ}$$) (ν μ) beams. The key components of the collider and neutrino factory systems were identified. Feasible designs and detailed simulations of all of these components were obtained, including some initial hardware component tests, setting the stage for future implementation where resources are available and clearly associated physics goals become apparent« less

Facing up to the imperceptible perspiration. Modulatory influences by diabetic neuropathy, physical exercise and antiperspirant.

PubMed

Xhauflaire-Uhoda, Emmanuelle; Mayeux, Géraldine; Quatresooz, Pascale; Scheen, André; Piérard, Gérald E

2011-11-01

Sweating is variably altered by physical exercise, diabetic neuropathy and antiperspirants. Skin temperature, skin surface water loss (SSWL), the Corneometer(®) average capacitance (CMAC) and skin capacitance mapping (SCM) were measured before and after moderate physical exercise in 20 healthy subjects. The effect of 5% aluminium chloride hexahydrate (ACH) in a water solution was similarly tested. The same assessments were performed in 20 diabetic patients at rest. Diabetic neuropathy appeared at rest as an increased (compensatory) SCM on the forearms without obvious modification on the hypohidrotic legs. On ACH sites after exercise, SCM revealed both a lowered number of active sweat glands and a lighter stratum corneum (SC) (dryness). In addition, CMAC and SSWL were decreased on ACH sites at rest and at completion of exercise. In diabetic neuropathy, the compensatory hyperhidrosis is more easily disclosed than the hypohidrosis. ACH affects both sweat excretion and the SC hydration. © 2011 John Wiley & Sons A/S.

Physical-enhanced secure strategy in an OFDM-PON.

PubMed

Zhang, Lijia; Xin, Xiangjun; Liu, Bo; Yu, Jianjun

2012-01-30

The physical layer of optical access network is vulnerable to various attacks. As the dramatic increase of users and network capacity, the issue of physical-layer security becomes more and more important. This paper proposes a physical-enhanced secure strategy for orthogonal frequency division multiplexing passive optical network (OFDM-PON) by employing frequency domain chaos scrambling. The Logistic map is adopted for the chaos mapping. The chaos scrambling strategy can dynamically allocate the scrambling matrices for different OFDM frames according to the initial condition, which enhance the confidentiality of the physical layer. A mathematical model of this secure system is derived firstly, which achieves a secure transmission at physical layer in OFDM-PON. The results from experimental implementation using Logistic mapped chaos scrambling are also given to further demonstrate the efficiency of this secure strategy. An 10.125 Gb/s 64QAM-OFDM data with Logistic mapped chaos scrambling are successfully transmitted over 25-km single mode fiber (SMF), and the experimental results show that proposed security scheme can protect the system from eavesdropper and attacker, while keep a good performance for the legal ONU.

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

PubMed Central

2011-01-01

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 model species. PMID:21906286

NORTH AMERICAN DATUM 1983 IMPLEMENTATION IMPACTS ON THE USGS NATIONAL MAPPING PROGRAM.

USGS Publications Warehouse

Jones, William J.; Needham, Paul E.

1985-01-01

The U. S. Geological Survey has previously experienced the impacts on the National Mapping Program that are associated with implementing a readjustment of the horizontal datum. The impacts of these past readjustments were minimal compared to those of the current readjustment. The Geological Survey currently has produced and published over 60,000 different map products. The 7. 5-minute mapping program is nearing completion with over 85 percent of the conterminous States mapped. The intermediate-scale mapping program of the conterminous United States is scheduled for completion of planimetric editions by the end of 1986. It is apparent that until digital cartographic data are available, implementation of the North American Datum 1983 will primarily consist of cartographic adjustment of existing map products.

Transition from complete synchronization to spatio-temporal chaos in coupled chaotic systems with nonhyperbolic and hyperbolic attractors

NASA Astrophysics Data System (ADS)

Rybalova, Elena; Semenova, Nadezhda; Strelkova, Galina; Anishchenko, Vadim

2017-06-01

We study the transition from coherence (complete synchronization) to incoherence (spatio-temporal chaos) in ensembles of nonlocally coupled chaotic maps with nonhyperbolic and hyperbolic attractors. As basic models of a partial element we use the Henon map and the Lozi map. We show that the transition to incoherence in a ring of coupled Henon maps occurs through the appearance of phase and amplitude chimera states. An ensemble of coupled Lozi maps demonstrates the coherence-incoherence transition via solitary states and no chimera states are observed in this case.

LinkImpute: Fast and Accurate Genotype Imputation for Nonmodel Organisms

PubMed Central

Money, Daniel; Gardner, Kyle; Migicovsky, Zoë; Schwaninger, Heidi; Zhong, Gan-Yuan; Myles, Sean

2015-01-01

Obtaining genome-wide genotype data from a set of individuals is the first step in many genomic studies, including genome-wide association and genomic selection. All genotyping methods suffer from some level of missing data, and genotype imputation can be used to fill in the missing data and improve the power of downstream analyses. Model organisms like human and cattle benefit from high-quality reference genomes and panels of reference genotypes that aid in imputation accuracy. In nonmodel organisms, however, genetic and physical maps often are either of poor quality or are completely absent, and there are no panels of reference genotypes available. There is therefore a need for imputation methods designed specifically for nonmodel organisms in which genomic resources are poorly developed and marker order is unreliable or unknown. Here we introduce LinkImpute, a software package based on a k-nearest neighbor genotype imputation method, LD-kNNi, which is designed for unordered markers. No physical or genetic maps are required, and it is designed to work on unphased genotype data from heterozygous species. It exploits the fact that markers useful for imputation often are not physically close to the missing genotype but rather distributed throughout the genome. Using genotyping-by-sequencing data from diverse and heterozygous accessions of apples, grapes, and maize, we compare LD-kNNi with several genotype imputation methods and show that LD-kNNi is fast, comparable in accuracy to the best-existing methods, and exhibits the least bias in allele frequency estimates. PMID:26377960

DOE Office of Scientific and Technical Information (OSTI.GOV)

Müller-Hermes, Alexander, E-mail: muellerh@ma.tum.de; Wolf, Michael M., E-mail: m.wolf@tum.de; Reeb, David, E-mail: reeb.qit@gmail.com

We investigate linear maps between matrix algebras that remain positive under tensor powers, i.e., under tensoring with n copies of themselves. Completely positive and completely co-positive maps are trivial examples of this kind. We show that for every n ∈ ℕ, there exist non-trivial maps with this property and that for two-dimensional Hilbert spaces there is no non-trivial map for which this holds for all n. For higher dimensions, we reduce the existence question of such non-trivial “tensor-stable positive maps” to a one-parameter family of maps and show that an affirmative answer would imply the existence of non-positive partial transposemore » bound entanglement. As an application, we show that any tensor-stable positive map that is not completely positive yields an upper bound on the quantum channel capacity, which for the transposition map gives the well-known cb-norm bound. We, furthermore, show that the latter is an upper bound even for the local operations and classical communications-assisted quantum capacity, and that moreover it is a strong converse rate for this task.« less

NASA Research Leads to First Complete Map of Antarctic Ice Flows

NASA Image and Video Library

2011-08-18

This image is the first complete map of the speed and direction of ice flow in Antartica. The thick black lines delineate major ice divides. Subglacial lakes in Antarctica interior are also outlined in black.

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

ERIC Educational Resources Information Center

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…

Crowdsourcing Physical Network Topology Mapping With Net.Tagger

DTIC Science & Technology

2016-03-01

backend server infrastructure . This in- cludes a full security audit, better web services handling, and integration with the OSM stack and dataset to...a novel approach to network infrastructure mapping that combines smartphone apps with crowdsourced collection to gather data for offline aggregation...and analysis. The project aims to build a map of physical network infrastructure such as fiber-optic cables, facilities, and access points. The

Algebra and topology for applications to physics

NASA Technical Reports Server (NTRS)

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.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Covrig, Silviu Doru

The G0 experiment in Hall C at Jefferson Lab measures the parity-violating asymmetry in elastic electron scattering off hydrogen and quasielastic electron scattering off deuterium in the Q 2 range from 0.1 to 1 (GeV) 2 in both forward and backward running modes by using a longitudinally polarized electron beam on unpolarized liquid targets. By measuring three independent asymmetries, one in forward running mode off liquid hydrogen and two in backward running mode, one off liquid hydrogen and one off liquid deuterium, the experiment aims to perform for the first time a complete separation and mapping of the strange vectormore » form factors of the nucleon (G_M s, G_E s) and the isovector axial form factor (G_A e(T=1)) in three Q 2 bins over the Q 2 range from 0.1 to 1 (GeV/c) 2. To complete the physics program in both forward and backward modes it will take about five years. To accomplish the forward running mode program some 100 C of data are needed. This thesis is based on 9 C of physics data taken during the first chekout of the G 0 apparatus during October 2002 - January 2003.« less

The shapes of column density PDFs. The importance of the last closed contour

NASA Astrophysics Data System (ADS)

Alves, João; Lombardi, Marco; Lada, Charles J.

2017-10-01

The probability distribution function of column density (PDF) has become the tool of choice for cloud structure analysis and star formation studies. Its simplicity is attractive, and the PDF could offer access to cloud physical parameters otherwise difficult to measure, but there has been some confusion in the literature on the definition of its completeness limit and shape at the low column density end. In this letter we use the natural definition of the completeness limit of a column density PDF, the last closed column density contour inside a surveyed region, and apply it to a set of large-scale maps of nearby molecular clouds. We conclude that there is no observational evidence for log-normal PDFs in these objects. We find that all studied molecular clouds have PDFs well described by power laws, including the diffuse cloud Polaris. Our results call for a new physical interpretation of the shape of the column density PDFs. We find that the slope of a cloud PDF is invariant to distance but not to the spatial arrangement of cloud material, and as such it is still a useful tool for investigating cloud structure.

GDR (Genome Database for Rosaceae): integrated web-database for Rosaceae genomics and genetics data

PubMed Central

Jung, Sook; Staton, Margaret; Lee, Taein; Blenda, Anna; Svancara, Randall; Abbott, Albert; Main, Dorrie

2008-01-01

The Genome Database for Rosaceae (GDR) is a central repository of curated and integrated genetics and genomics data of Rosaceae, an economically important family which includes apple, cherry, peach, pear, raspberry, rose and strawberry. GDR contains annotated databases of all publicly available Rosaceae ESTs, the genetically anchored peach physical map, Rosaceae genetic maps and comprehensively annotated markers and traits. The ESTs are assembled to produce unigene sets of each genus and the entire Rosaceae. Other annotations include putative function, microsatellites, open reading frames, single nucleotide polymorphisms, gene ontology terms and anchored map position where applicable. Most of the published Rosaceae genetic maps can be viewed and compared through CMap, the comparative map viewer. The peach physical map can be viewed using WebFPC/WebChrom, and also through our integrated GDR map viewer, which serves as a portal to the combined genetic, transcriptome and physical mapping information. ESTs, BACs, markers and traits can be queried by various categories and the search result sites are linked to the mapping visualization tools. GDR also provides online analysis tools such as a batch BLAST/FASTA server for the GDR datasets, a sequence assembly server and microsatellite and primer detection tools. GDR is available at http://www.rosaceae.org. PMID:17932055

Physics faculty beliefs and values about the teaching and learning of problem solving. II. Procedures for measurement and analysis

NASA Astrophysics Data System (ADS)

Henderson, Charles; Yerushalmi, Edit; Kuo, Vince H.; Heller, Kenneth; Heller, Patricia

2007-12-01

To identify and describe the basis upon which instructors make curricular and pedagogical decisions, we have developed an artifact-based interview and an analysis technique based on multilayered concept maps. The policy capturing technique used in the interview asks instructors to make judgments about concrete instructional artifacts similar to those they likely encounter in their teaching environment. The analysis procedure alternatively employs both an a priori systems view analysis and an emergent categorization to construct a multilayered concept map, which is a hierarchically arranged set of concept maps where child maps include more details than parent maps. Although our goal was to develop a model of physics faculty beliefs about the teaching and learning of problem solving in the context of an introductory calculus-based physics course, the techniques described here are applicable to a variety of situations in which instructors make decisions that influence teaching and learning.

Toward Integration of Comparative Genetic, Physical, Diversity, and Cytomolecular Maps for Grasses and Grains, Using the Sorghum Genome as a Foundation1

PubMed Central

Draye, Xavier; Lin, Yann-Rong; Qian, Xiao-yin; Bowers, John E.; Burow, Gloria B.; Morrell, Peter L.; Peterson, Daniel G.; Presting, Gernot G.; Ren, Shu-xin; Wing, Rod A.; Paterson, Andrew H.

2001-01-01

The small genome of sorghum (Sorghum bicolor L. Moench.) provides an important template for study of closely related large-genome crops such as maize (Zea mays) and sugarcane (Saccharum spp.), and is a logical complement to distantly related rice (Oryza sativa) as a “grass genome model.” Using a high-density RFLP map as a framework, a robust physical map of sorghum is being assembled by integrating hybridization and fingerprint data with comparative data from related taxa such as rice and using new methods to resolve genomic duplications into locus-specific groups. By taking advantage of allelic variation revealed by heterologous probes, the positions of corresponding loci on the wheat (Triticum aestivum), rice, maize, sugarcane, and Arabidopsis genomes are being interpolated on the sorghum physical map. Bacterial artificial chromosomes for the small genome of rice are shown to close several gaps in the sorghum contigs; the emerging rice physical map and assembled sequence will further accelerate progress. An important motivation for developing genomic tools is to relate molecular level variation to phenotypic diversity. “Diversity maps,” which depict the levels and patterns of variation in different gene pools, shed light on relationships of allelic diversity with chromosome organization, and suggest possible locations of genomic regions that are under selection due to major gene effects (some of which may be revealed by quantitative trait locus mapping). Both physical maps and diversity maps suggest interesting features that may be integrally related to the chromosomal context of DNA—progress in cytology promises to provide a means to elucidate such relationships. We seek to provide a detailed picture of the structure, function, and evolution of the genome of sorghum and its relatives, together with molecular tools such as locus-specific sequence-tagged site DNA markers and bacterial artificial chromosome contigs that will have enduring value for many aspects of genome analysis. PMID:11244113

User Identified Positive Outcome Expectancies of Electronic Cigarette Use: a Concept Mapping Study

PubMed Central

Soule, Eric K.; Maloney, Sarah F.; Guy, Mignonne C.; Eissenberg, Thomas; Fagan, Pebbles

2017-01-01

Electronic cigarette (ECIG) use is growing in popularity, however, little is known about the perceived positive outcomes of ECIG use. This study used concept mapping (CM) to examine positive ECIG outcome expectancies. Sixty-three past 30-day ECIG users (38.1% female) between the ages of 18 and 64 (M = 37.8, SD = 13.3) completed a CM module. In an online program, participants provided statements that completed a prompt: “A specific positive, enjoyable, or exciting effect (i.e., physical or psychological) that I have experienced WHILE USING or IMMEDIATELY AFTER USING an electronic cigarette/electronic vaping device is…”. Participants (n = 35) sorted 123 statements into “piles” of similar content and rated (n = 43) each statement on a 7-point scale (1-Definitely NOT a positive effect to 7-Definitely a positive effect). A cluster map was created using data from the sorting task and analysis indicated a seven cluster model of positive ECIG use outcome expectancies: Therapeutic/Affect Regulation, High/Euphoria, Sensation Enjoyment, Perceived Health Effects, Benefits of Decreased Cigarette Use, Convenience, and Social Impacts. The Perceived Health Effects cluster was rated highest, though all mean ratings were greater than 4.69. Mean cluster ratings were compared and females, younger adults, past 30-day cigarette smokers, users of more “advanced” ECIG devices, and non-lifetime (less than 100 lifetime cigarettes) participants rated certain clusters higher than comparison groups (ps < 0.05). ECIG users associate positive outcomes with ECIG use. ECIG outcome expectancies may affect product appeal and tobacco use behaviors and should be examined further to inform regulatory policies. PMID:28277706

High-Resolution Global Geologic Map of Ceres from NASA Dawn Mission

NASA Astrophysics Data System (ADS)

Williams, D. A.; Buczkowski, D. L.; Crown, D. A.; Frigeri, A.; Hughson, K.; Kneissl, T.; Krohn, K.; Mest, S. C.; Pasckert, J. H.; Platz, T.; Ruesch, O.; Schulzeck, F.; Scully, J. E. C.; Sizemore, H. G.; Nass, A.; Jaumann, R.; Raymond, C. A.; Russell, C. T.

2018-06-01

This presentation will discuss the completed 1:4,000,000 global geologic map of dwarf planet Ceres derived from Dawn Framing Camera Low Altitude Mapping Orbit (LAMo) images, combining 15 quadrangle maps.

Integrated platform for genome-wide screening and construction of high-density genetic interaction maps in mammalian cells

PubMed Central

Kampmann, Martin; Bassik, Michael C.; Weissman, Jonathan S.

2013-01-01

A major challenge of the postgenomic era is to understand how human genes function together in normal and disease states. In microorganisms, high-density genetic interaction (GI) maps are a powerful tool to elucidate gene functions and pathways. We have developed an integrated methodology based on pooled shRNA screening in mammalian cells for genome-wide identification of genes with relevant phenotypes and systematic mapping of all GIs among them. We recently demonstrated the potential of this approach in an application to pathways controlling the susceptibility of human cells to the toxin ricin. Here we present the complete quantitative framework underlying our strategy, including experimental design, derivation of quantitative phenotypes from pooled screens, robust identification of hit genes using ultra-complex shRNA libraries, parallel measurement of tens of thousands of GIs from a single double-shRNA experiment, and construction of GI maps. We describe the general applicability of our strategy. Our pooled approach enables rapid screening of the same shRNA library in different cell lines and under different conditions to determine a range of different phenotypes. We illustrate this strategy here for single- and double-shRNA libraries. We compare the roles of genes for susceptibility to ricin and Shiga toxin in different human cell lines and reveal both toxin-specific and cell line-specific pathways. We also present GI maps based on growth and ricin-resistance phenotypes, and we demonstrate how such a comparative GI mapping strategy enables functional dissection of physical complexes and context-dependent pathways. PMID:23739767

A Model of RHIC Using the Unified Accelerator Libraries

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pilat, F.; Tepikian, S.; Trahern, C. G.

1998-01-01

The Unified Accelerator Library (UAL) is an object oriented and modular software environment for accelerator physics which comprises an accelerator object model for the description of the machine (SMF, for Standard Machine Format), a collection of Physics Libraries, and a Perl inte,face that provides a homo­geneous shell for integrating and managing these components. Currently available physics libraries include TEAPOT++, a collection of C++ physics modules conceptually derived from TEAPOT, and DNZLIB, a differential algebra package for map generation. This software environment has been used to build a flat model of RHIC which retains the hierarchical lat­tice description while assigning specificmore » characteristics to individual elements, such as measured field har­monics. A first application of the model and of the simulation capabilities of UAL has been the study of RHIC stability in the presence of siberian snakes and spin rotators. The building blocks of RHIC snakes and rotators are helical dipoles, unconventional devices that can not be modeled by traditional accelerator phys­ics codes and have been implemented in UAL as Taylor maps. Section 2 describes the RHIC data stores, Section 3 the RHIC SMF format and Section 4 the RHIC spe­cific Perl interface (RHIC Shell). Section 5 explains how the RHIC SMF and UAL have been used to study the RHIC dynamic behavior and presents detuning and dynamic aperture results. If the reader is not familiar with the motivation and characteristics of UAL, we include in the Appendix an useful overview paper. An example of a complete set of Perl Scripts for RHIC simulation can also be found in the Appendix.« less

The Combination of Sonography and Physical Examination Improves the Patency and Suitability of Hemodialysis Arteriovenous Fistula in Vascular Access.

PubMed

Mat Said, Normawati; Musa, Kamarul Imran; Mohamed Daud, Mohamed Ashraf; Haron, Juhara

2016-07-01

We compared the patency and the suitability of arteriovenous fistula (AVF) created for vascular access by two approaches: (a) physical examination with preoperative vascular mapping and (b) physical examination alone. We compared the patency and the suitability of AVF created in patients for dialysis. There were two cohorts of patients of 79 patients each: (a) patients with AVF created based on the combination of physical examination and preoperative vascular mapping (PE+VM) and (b) patients with AVF created based on physical examination (PE) alone. Fistula patency is defined as clinical detection of thrill (or auscultation) of murmur over the fistula and coded as having thrills (patent) versus not having thrills (not patent). Suitability of fistula is defined as functioning AVF (AVF can be adequately used via 2-needle cannulation for dialysis) and coded as suitable versus not suitable. AVF created after the preoperative vascular mapping (PE+VM) has 5.70 (at six weeks) and 3.76 (at three months) times higher chance for patency, and 3.08 times higher chance for suitable AVF for dialysis than AVF created after the physical examination (PE) alone. Physical examination with preoperative ultrasound mapping (PE+VM) significantly improves the short term patency and the suitability of AVF for dialysis.

A complete mass spectrometric map for the analysis of the yeast proteome and its application to quantitative trait analysis

PubMed Central

Picotti, Paola; Clement-Ziza, Mathieu; Lam, Henry; Campbell, David S.; Schmidt, Alexander; Deutsch, Eric W.; Röst, Hannes; Sun, Zhi; Rinner, Oliver; Reiter, Lukas; Shen, Qin; Michaelson, Jacob J.; Frei, Andreas; Alberti, Simon; Kusebauch, Ulrike; Wollscheid, Bernd; Moritz, Robert; Beyer, Andreas; Aebersold, Ruedi

2013-01-01

Complete reference maps or datasets, like the genomic map of an organism, are highly beneficial tools for biological and biomedical research. Attempts to generate such reference datasets for a proteome so far failed to reach complete proteome coverage, with saturation apparent at approximately two thirds of the proteomes tested, even for the most thoroughly characterized proteomes. Here, we used a strategy based on high-throughput peptide synthesis and mass spectrometry to generate a close to complete reference map (97% of the genome-predicted proteins) of the S. cerevisiae proteome. We generated two versions of this mass spectrometric map one supporting discovery- (shotgun) and the other hypothesis-driven (targeted) proteomic measurements. The two versions of the map, therefore, constitute a complete set of proteomic assays to support most studies performed with contemporary proteomic technologies. The reference libraries can be browsed via a web-based repository and associated navigation tools. To demonstrate the utility of the reference libraries we applied them to a protein quantitative trait locus (pQTL) analysis, which requires measurement of the same peptides over a large number of samples with high precision. Protein measurements over a set of 78 S. cerevisiae strains revealed a complex relationship between independent genetic loci, impacting on the levels of related proteins. Our results suggest that selective pressure favors the acquisition of sets of polymorphisms that maintain the stoichiometry of protein complexes and pathways. PMID:23334424

Randomly picked cosmid clones overlap the pyrB and oriC gap in the physical map of the E. coli chromosome.

PubMed Central

Knott, V; Rees, D J; Cheng, Z; Brownlee, G G

1988-01-01

Sets of overlapping cosmid clones generated by random sampling and fingerprinting methods complement data at pyrB (96.5') and oriC (84') in the published physical map of E. coli. A new cloning strategy using sheared DNA, and a low copy, inducible cosmid vector were used in order to reduce bias in libraries, in conjunction with micro-methods for preparing cosmid DNA from a large number of clones. Our results are relevant to the design of the best approach to the physical mapping of large genomes. PMID:2834694

Eulusmap: An international land resources map utilizing satellite imagery

NASA Technical Reports Server (NTRS)

Paludan, T.; Csati, E.

1978-01-01

In 1972, the International Geographical Union's Commission on World Land Use Survey adopted a project for a land-use map of Europe. Such a map, under the name Eulusmap was started earlier under sponsorship of several government offices in Hungary. Although there was great response from a number of contributors in many countries, it became evident by mid-1974 that the map would contain gaps and some inaccuracies unless additional data sources were utilized. By then, the satellite Landsat-1 had obtained imagery of most of Europe. Using theme extraction techniques, the map was completed in draft form and portions of it displayed at the 23d International Geographical Congress in Moscow during July 1976. Printing of the completed map was accomplished in May 1978.

Mapping alpha-Particle X-Ray Fluorescence Spectrometer (Map-X)

NASA Technical Reports Server (NTRS)

Blake, D. F.; Sarrazin, P.; Bristow, T.

2014-01-01

Many planetary surface processes (like physical and chemical weathering, water activity, diagenesis, low-temperature or impact metamorphism, and biogenic activity) leave traces of their actions as features in the size range 10s to 100s of micron. The Mapping alpha-particle X-ray Spectrometer ("Map-X") is intended to provide chemical imaging at 2 orders of magnitude higher spatial resolution than previously flown instruments, yielding elemental chemistry at or below the scale length where many relict physical, chemical, and biological features can be imaged and interpreted in ancient rocks.

Assessing natural hazard risk using images and data

NASA Astrophysics Data System (ADS)

Mccullough, H. L.; Dunbar, P. K.; Varner, J. D.; Mungov, G.

2012-12-01

Photographs and other visual media provide valuable pre- and post-event data for natural hazard assessment. Scientific research, mitigation, and forecasting rely on visual data for risk analysis, inundation mapping and historic records. Instrumental data only reveal a portion of the whole story; photographs explicitly illustrate the physical and societal impacts from the event. Visual data is rapidly increasing as the availability of portable high resolution cameras and video recorders becomes more attainable. Incorporating these data into archives ensures a more complete historical account of events. Integrating natural hazards data, such as tsunami, earthquake and volcanic eruption events, socio-economic information, and tsunami deposits and runups along with images and photographs enhances event comprehension. Global historic databases at NOAA's National Geophysical Data Center (NGDC) consolidate these data, providing the user with easy access to a network of information. NGDC's Natural Hazards Image Database (ngdc.noaa.gov/hazardimages) was recently improved to provide a more efficient and dynamic user interface. It uses the Google Maps API and Keyhole Markup Language (KML) to provide geographic context to the images and events. Descriptive tags, or keywords, have been applied to each image, enabling easier navigation and discovery. In addition, the Natural Hazards Map Viewer (maps.ngdc.noaa.gov/viewers/hazards) provides the ability to search and browse data layers on a Mercator-projection globe with a variety of map backgrounds. This combination of features creates a simple and effective way to enhance our understanding of hazard events and risks using imagery.

Construction of Reference Chromosome-Scale Pseudomolecules for Potato: Integrating the Potato Genome with Genetic and Physical Maps

PubMed Central

Sharma, Sanjeev Kumar; Bolser, Daniel; de Boer, Jan; Sønderkær, Mads; Amoros, Walter; Carboni, Martin Federico; D’Ambrosio, Juan Martín; de la Cruz, German; Di Genova, Alex; Douches, David S.; Eguiluz, Maria; Guo, Xiao; Guzman, Frank; Hackett, Christine A.; Hamilton, John P.; Li, Guangcun; Li, Ying; Lozano, Roberto; Maass, Alejandro; Marshall, David; Martinez, Diana; McLean, Karen; Mejía, Nilo; Milne, Linda; Munive, Susan; Nagy, Istvan; Ponce, Olga; Ramirez, Manuel; Simon, Reinhard; Thomson, Susan J.; Torres, Yerisf; Waugh, Robbie; Zhang, Zhonghua; Huang, Sanwen; Visser, Richard G. F.; Bachem, Christian W. B.; Sagredo, Boris; Feingold, Sergio E.; Orjeda, Gisella; Veilleux, Richard E.; Bonierbale, Merideth; Jacobs, Jeanne M. E.; Milbourne, Dan; Martin, David Michael Alan; Bryan, Glenn J.

2013-01-01

The genome of potato, a major global food crop, was recently sequenced. The work presented here details the integration of the potato reference genome (DM) with a new sequence-tagged site marker−based linkage map and other physical and genetic maps of potato and the closely related species tomato. Primary anchoring of the DM genome assembly was accomplished by the use of a diploid segregating population, which was genotyped with several types of molecular genetic markers to construct a new ~936 cM linkage map comprising 2469 marker loci. In silico anchoring approaches used genetic and physical maps from the diploid potato genotype RH89-039-16 (RH) and tomato. This combined approach has allowed 951 superscaffolds to be ordered into pseudomolecules corresponding to the 12 potato chromosomes. These pseudomolecules represent 674 Mb (~93%) of the 723 Mb genome assembly and 37,482 (~96%) of the 39,031 predicted genes. The superscaffold order and orientation within the pseudomolecules are closely collinear with independently constructed high density linkage maps. Comparisons between marker distribution and physical location reveal regions of greater and lesser recombination, as well as regions exhibiting significant segregation distortion. The work presented here has led to a greatly improved ordering of the potato reference genome superscaffolds into chromosomal “pseudomolecules”. PMID:24062527

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

NASA Astrophysics Data System (ADS)

Steele, Amy; Smith, Robyn; Wilkins, Ashlee; Jameson, Katie

2018-01-01

Graduate Resources for Advancing Diversity with Maryland’s Astronomy and Physics (GRAD-MAP), builds connections between UMD and mid-Atlantic HBCUs, Minority-Serving Institutions (MSIs), and community colleges. We use seminars, forums, and workshops to foster a diverse community of undergraduates prepared to succeed in graduate school, inclusion-minded graduate student mentors, and faculty versed in the experiences of students at MSIs and the need for changes in the fields of physics and astronomy. Now in its fifth year, GRAD-MAP remains a graduate-student-powered initiative with a three-pronged approach: 1) Fall Collaborative Seminars, 2) A Winter Workshop, and 3) A Summer Scholars Program. This coherent set of programming 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 active in research). GRAD-MAP 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 substantial, sustainable efforts toward making the climate of academic physics and astronomy more inclusive to them and all other underrepresented minority students. We will describe the key elements of our program, highlight successes and lessons learned, and describe future directions for program elements. GRAD-MAP can serve as a model for other universities committed to diversity and inclusion.

Comparative morphometry of facial surface models obtained from a stereo vision system in a healthy population

NASA Astrophysics Data System (ADS)

López, Leticia; Gastélum, Alfonso; Chan, Yuk Hin; Delmas, Patrice; Escorcia, Lilia; Márquez, Jorge

2014-11-01

Our goal is to obtain three-dimensional measurements of craniofacial morphology in a healthy population, using standard landmarks established by a physical-anthropology specialist and picked from computer reconstructions of the face of each subject. To do this, we designed a multi-stereo vision system that will be used to create a data base of human faces surfaces from a healthy population, for eventual applications in medicine, forensic sciences and anthropology. The acquisition process consists of obtaining the depth map information from three points of views, each depth map is obtained from a calibrated pair of cameras. The depth maps are used to build a complete, frontal, triangular-surface representation of the subject face. The triangular surface is used to locate the landmarks and the measurements are analyzed with a MATLAB script. The classification of the subjects was done with the aid of a specialist anthropologist that defines specific subject indices, according to the lengths, areas, ratios, etc., of the different structures and the relationships among facial features. We studied a healthy population and the indices from this population will be used to obtain representative averages that later help with the study and classification of possible pathologies.

Key Technologies of Phone Storage Forensics Based on ARM Architecture

NASA Astrophysics Data System (ADS)

Zhang, Jianghan; Che, Shengbing

2018-03-01

Smart phones are mainly running Android, IOS and Windows Phone three mobile platform operating systems. The android smart phone has the best market shares and its processor chips are almost ARM software architecture. The chips memory address mapping mechanism of ARM software architecture is different with x86 software architecture. To forensics to android mart phone, we need to understand three key technologies: memory data acquisition, the conversion mechanism from virtual address to the physical address, and find the system’s key data. This article presents a viable solution which does not rely on the operating system API for a complete solution to these three issues.

A near-infrared spectroscopic study of the starburst core of M82

NASA Technical Reports Server (NTRS)

Lester, D. F.; Gaffney, N.; Carr, J. S.; Joy, M.

1990-01-01

Near-IR spectroscopy of the M82 starburst core is presented, including complete J, H, and K band spectra with a resolution of 0.0035-micron for the inner 60 pc of the galaxy. Also, spatial profiles along the starburst ridge are presented for Br-gamma, molecular hydrogen, and forbidden Fe II line fluxes. Emission from shocked molecular hydrogen is detected from the core of M82. The distribution of features across the starburst disk are mapped to study the relationships between spectral diagnostics. The observations are used to test the appropriateness of single-beam, aggregate models for studying the physical conditions in starbursts.

DNA nanomapping using CRISPR-Cas9 as a programmable nanoparticle.

PubMed

Mikheikin, Andrey; Olsen, Anita; Leslie, Kevin; Russell-Pavier, Freddie; Yacoot, Andrew; Picco, Loren; Payton, Oliver; Toor, Amir; Chesney, Alden; Gimzewski, James K; Mishra, Bud; Reed, Jason

2017-11-21

Progress in whole-genome sequencing using short-read (e.g., <150 bp), next-generation sequencing technologies has reinvigorated interest in high-resolution physical mapping to fill technical gaps that are not well addressed by sequencing. Here, we report two technical advances in DNA nanotechnology and single-molecule genomics: (1) we describe a labeling technique (CRISPR-Cas9 nanoparticles) for high-speed AFM-based physical mapping of DNA and (2) the first successful demonstration of using DVD optics to image DNA molecules with high-speed AFM. As a proof of principle, we used this new "nanomapping" method to detect and map precisely BCL2-IGH translocations present in lymph node biopsies of follicular lymphoma patents. This HS-AFM "nanomapping" technique can be complementary to both sequencing and other physical mapping approaches.

Cross-terminology mapping challenges: a demonstration using medication terminological systems.

PubMed

Saitwal, Himali; Qing, David; Jones, Stephen; Bernstam, Elmer V; Chute, Christopher G; Johnson, Todd R

2012-08-01

Standardized terminological systems for biomedical information have provided considerable benefits to biomedical applications and research. However, practical use of this information often requires mapping across terminological systems-a complex and time-consuming process. This paper demonstrates the complexity and challenges of mapping across terminological systems in the context of medication information. It provides a review of medication terminological systems and their linkages, then describes a case study in which we mapped proprietary medication codes from an electronic health record to SNOMED CT and the UMLS Metathesaurus. The goal was to create a polyhierarchical classification system for querying an i2b2 clinical data warehouse. We found that three methods were required to accurately map the majority of actively prescribed medications. Only 62.5% of source medication codes could be mapped automatically. The remaining codes were mapped using a combination of semi-automated string comparison with expert selection, and a completely manual approach. Compound drugs were especially difficult to map: only 7.5% could be mapped using the automatic method. General challenges to mapping across terminological systems include (1) the availability of up-to-date information to assess the suitability of a given terminological system for a particular use case, and to assess the quality and completeness of cross-terminology links; (2) the difficulty of correctly using complex, rapidly evolving, modern terminologies; (3) the time and effort required to complete and evaluate the mapping; (4) the need to address differences in granularity between the source and target terminologies; and (5) the need to continuously update the mapping as terminological systems evolve. Copyright © 2012 Elsevier Inc. All rights reserved.

Cross-terminology mapping challenges: A demonstration using medication terminological systems

PubMed Central

Saitwal, Himali; Qing, David; Jones, Stephen; Bernstam, Elmer; Chute, Christopher G.; Johnson, Todd R.

2015-01-01

Standardized terminological systems for biomedical information have provided considerable benefits to biomedical applications and research. However, practical use of this information often requires mapping across terminological systems—a complex and time-consuming process. This paper demonstrates the complexity and challenges of mapping across terminological systems in the context of medication information. It provides a review of medication terminological systems and their linkages, then describes a case study in which we mapped proprietary medication codes from an electronic health record to SNOMED-CT and the UMLS Metathesaurus. The goal was to create a polyhierarchical classification system for querying an i2b2 clinical data warehouse. We found that three methods were required to accurately map the majority of actively prescribed medications. Only 62.5% of source medication codes could be mapped automatically. The remaining codes were mapped using a combination of semi-automated string comparison with expert selection, and a completely manual approach. Compound drugs were especially difficult to map: only 7.5% could be mapped using the automatic method. General challenges to mapping across terminological systems include (1) the availability of up-to-date information to assess the suitability of a given terminological system for a particular use case, and to assess the quality and completeness of cross-terminology links; (2) the difficulty of correctly using complex, rapidly evolving, modern terminologies; (3) the time and effort required to complete and evaluate the mapping; (4) the need to address differences in granularity between the source and target terminologies; and (5) the need to continuously update the mapping as terminological systems evolve. PMID:22750536

Mental and Physical (MAP) Training: a neurogenesis-inspired intervention that enhances health in humans.

PubMed

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

2014-11-01

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, Kempermann, & Gage, 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 30min of mental training with focused attention meditation (20min sitting and 10min walking). Meditation is an effortful training practice that involves learning about the transient nature of thoughts and thought patterns, and acquiring skills to recognize them without necessarily attaching meaning and/or emotions to them. The mental training component is followed by physical training with 30min of aerobic exercise performed at moderate intensity. During this component, participants learn choreographed dance routines while engaging in aerobic exercise. In a pilot "proof-of-concept" study, we provided supervised MAP Training (2 sessions per week for 8weeks) to a group of young mothers in the local community who were recently homeless, most of them having previously suffered from physical and sexual abuse, addiction, and depression. Preliminary data suggest that MAP Training improves dependent measures of aerobic fitness (as assessed by maximal rate of oxygen consumed) while decreasing symptoms of depression and anxiety. Similar changes were not observed in a group of recently homeless women who did not participate in MAP Training. It is not currently possible to determine whether new neurons in the human brain increase in number as a result of MAP Training. Rather these preliminary results of MAP Training illustrate how neuroscientific research can be translated into novel clinical interventions that benefit human health and wellness. Copyright © 2014 Elsevier Inc. All rights reserved.

Using microsatellites to understand the physical distribution of recombination on soybean chromosomes.

PubMed

Ott, Alina; Trautschold, Brian; Sandhu, Devinder

2011-01-01

Soybean is a major crop that is an important source of oil and proteins. A number of genetic linkage maps have been developed in soybean. Specifically, hundreds of simple sequence repeat (SSR) markers have been developed and mapped. Recent sequencing of the soybean genome resulted in the generation of vast amounts of genetic information. The objectives of this investigation were to use SSR markers in developing a connection between genetic and physical maps and to determine the physical distribution of recombination on soybean chromosomes. A total of 2,188 SSRs were used for sequence-based physical localization on soybean chromosomes. Linkage information was used from different maps to create an integrated genetic map. Comparison of the integrated genetic linkage maps and sequence based physical maps revealed that the distal 25% of each chromosome was the most marker-dense, containing an average of 47.4% of the SSR markers and 50.2% of the genes. The proximal 25% of each chromosome contained only 7.4% of the markers and 6.7% of the genes. At the whole genome level, the marker density and gene density showed a high correlation (R(2)) of 0.64 and 0.83, respectively with the physical distance from the centromere. Recombination followed a similar pattern with comparisons indicating that recombination is high in telomeric regions, though the correlation between crossover frequency and distance from the centromeres is low (R(2) = 0.21). Most of the centromeric regions were low in recombination. The crossover frequency for the entire soybean genome was 7.2%, with extremes much higher and lower than average. The number of recombination hotspots varied from 1 to 12 per chromosome. A high correlation of 0.83 between the distribution of SSR markers and genes suggested close association of SSRs with genes. The knowledge of distribution of recombination on chromosomes may be applied in characterizing and targeting genes.

A physical map of a BAC clone contig covering the entire autosome insertion between ovine MHC Class IIa and IIb

PubMed Central

2012-01-01

Background The ovine Major Histocompatibility Complex (MHC) harbors genes involved in overall resistance/susceptibility of the host to infectious diseases. Compared to human and mouse, the ovine MHC is interrupted by a large piece of autosome insertion via a hypothetical chromosome inversion that constitutes ~25% of ovine chromosome 20. The evolutionary consequence of such an inversion and an insertion (inversion/insertion) in relation to MHC function remains unknown. We previously constructed a BAC clone physical map for the ovine MHC exclusive of the insertion region. Here we report the construction of a high-density physical map covering the autosome insertion in order to address the question of what the inversion/insertion had to do with ruminants during the MHC evolution. Results A total of 119 pairs of comparative bovine oligo primers were utilized to screen an ovine BAC library for positive clones and the orders and overlapping relationships of the identified clones were determined by DNA fingerprinting, BAC-end sequencing, and sequence-specific PCR. A total of 368 positive BAC clones were identified and 108 of the effective clones were ordered into an overlapping BAC contig to cover the consensus region between ovine MHC class IIa and IIb. Therefore, a continuous physical map covering the entire ovine autosome inversion/insertion region was successfully constructed. The map confirmed the bovine sequence assembly for the same homologous region. The DNA sequences of 185 BAC-ends have been deposited into NCBI database with the access numbers HR309252 through HR309068, corresponding to dbGSS ID 30164010 through 30163826. Conclusions We have constructed a high-density BAC clone physical map for the ovine autosome inversion/insertion between the MHC class IIa and IIb. The entire ovine MHC region is now fully covered by a continuous BAC clone contig. The physical map we generated will facilitate MHC functional studies in the ovine, as well as the comparative MHC evolution in ruminants. PMID:22897909

Appropriateness of ICNP in Korean home care nursing.

PubMed

Kang, Min-Jeoung; Kim, Soon-Lae; Lee, Jong-Eun; Jung, Chai Young; Kim, Sukil

2015-09-01

There are several hospitals in Korea that introduced the ICNP (International Classification for Nursing Practice) as the standard terminology for clinical and home care nursing. This research attempted to determine the appropriateness of ICNP in Korean, hospital based, home care nursing. The data was collected from a home care nursing center from January 1, 2009 to September 21, 2012. The center is operated by a Korean teaching hospital equipped with an ICNP based electronic nursing record (ENR) system. Via a refining process, 40,082 simplified sentences of nursing intervention were acquired from 41,158 nursing records. Among them, 545 preferred nursing statements were extracted, then mapped, to ICNP 2011 at both axis and sentence levels. The mapping results were classified into three categories based on the axis of concept origin and the level of hierarchy. These categories were titled: complete, incomplete and no mapping. Out of 45 unique concepts in the action axis, 42 (93.33%) concepts were completely mapped. However, only 38 (15.08%), out of 252 unique concepts, were completely mapped in the focus axis. At the statement level, only 19.63% of statements were completely mapped. The ICNP is not useful as a tool for home care nursing in its present form. The granularity of ICNP has to be improved and more concepts, specific to home care nursing, need to be added in the focus and action axes. Also, a new measure needs to be introduced to prevent information loss during mapping. Copyright © 2015 Elsevier Ireland Ltd. All rights reserved.

The need for sustained and integrated high-resolution mapping of dynamic coastal environments

USGS Publications Warehouse

Stockdon, Hilary F.; Lillycrop, Jeff W.; Howd, Peter A.; Wozencraft, Jennifer M.

2007-01-01

The evolution of the United States' coastal zone response to both human activities and natural processes is dynamic. Coastal resource and population protection requires understanding, in detail, the processes needed for change as well as the physical setting. Sustained coastal area mapping allows change to be documented and baseline conditions to be established, as well as future behavior to be predicted in conjunction with physical process models. Hyperspectral imagers and airborne lidars, as well as other recent mapping technology advances, allow rapid national scale land use information and high-resolution elevation data collection. Coastal hazard risk evaluation has critical dependence on these rich data sets. A fundamental storm surge model parameter in predicting flooding location, for example, is coastal elevation data, and a foundation in identifying the most vulnerable populations and resources is land use maps. A wealth of information for physical change process study, coastal resource and community management and protection, and coastal area hazard vulnerability determination, is available in a comprehensive national coastal mapping plan designed to take advantage of recent mapping technology progress and data distribution, management, and collection.

Implementation of softcopy photogrammetric workstations at the US Geological Survey

USGS Publications Warehouse

Skalet, C.D.; Lee, G.Y.G.; Ladner, L. J.

1992-01-01

The US Geological Survey has provided the Nation with primary quadrangle maps and map products for the last 50 years. The Survey recently completed initial coverage of the conterminous United States and Hawaii at 1:24 000 scale. In Alaska, complete coverage exists at 1:63 360 scale. Effort is underway to build a National Digital Cartographic Data Base (NDCDB) composed of the digital representation of these and other map series. In addition the Survey plans to meet the demand for more current and complete data through the development and promotion of spatial data standards in cooperation with other Federal, State, local and private organizations. -from Authors

Monitoring Corals and Submerged Aquatic Vegetation in Western Pacific Using Satellite Remote Sensing Integrated with Field Data

NASA Astrophysics Data System (ADS)

Roelfsema, C. M.; Phinn, S. R.; Lyons, M. B.; Kovacs, E.; Saunders, M. I.; Leon, J. X.

2013-12-01

Corals and Submerged Aquatic Vegetation (SAV) are typically found in highly dynamic environments where the magnitude and types of physical and biological processes controlling their distribution, diversity and function changes dramatically. Recent advances in the types of satellite image data and the length of their archives that are available globally, coupled with new techniques for extracting environmental information from these data sets has enabled significant advances to be made in our ability to map and monitor coral and SAV environments. Object Based Image Analysis techniques are one of the most significant advances in information extraction techniques for processing images to deliver environmental information at multiple spatial scales. This poster demonstrates OBIA applied to high spatial resolution satellite image data to map and monitor coral and SAV communities across a variety of environments in the Western Pacific that vary in their extent, biological composition, forcing physical factors and location. High spatial resolution satellite imagery (Quickbird, Ikonos and Worldview2) were acquired coincident with field surveys on each reef to collect georeferenced benthic photo transects, over various areas in the Western Pacific. Base line maps were created, from Roviana Lagoon Solomon island (600 km2), Bikini Atoll Marshall Island (800 Km2), Lizard Island, Australia (30 km2) and time series maps for geomorphic and benthic communities were collected for Heron Reef, Australia (24 km2) and Eastern Banks area of Moreton Bay, Australia (200 km2). The satellite image data were corrected for radiometric and atmospheric distortions to at-surface reflectance. Georeferenced benthic photos were acquired by divers or Autonomous Underwater Vehicles, analysed for benthic cover composition, and used for calibration and validation purposes. Hierarchical mapping from: reef/non-reef (1000's - 10000's m); reef type (100's - 1000's m); 'geomorphic zone' (10's - 100's m); to dominant components of benthic cover compositions (1 - 10's m); and individual benthic cover type scale (0.5-5.0's m), was completed using object based segmentation and semi-automated labelling through membership rules. Accuracy assessment of the satellite image based maps and field data sets scales maps produced with 90% maximum accuracy larger scales and less complex maps, versus 40 % at smaller scale and complex maps. The study showed that current data sets and object based analysis are able to reliable map at various scales and level of complexity covering a variety of extent and environments at various times; as a result science and management can use these tools to assess and understand the ecological processes taking place in coral and SAV environments.

Relational Database for the Geology of the Northern Rocky Mountains - Idaho, Montana, and Washington

USGS Publications Warehouse

Causey, J. Douglas; Zientek, Michael L.; Bookstrom, Arthur A.; Frost, Thomas P.; Evans, Karl V.; Wilson, Anna B.; Van Gosen, Bradley S.; Boleneus, David E.; Pitts, Rebecca A.

2008-01-01

A relational database was created to prepare and organize geologic map-unit and lithologic descriptions for input into a spatial database for the geology of the northern Rocky Mountains, a compilation of forty-three geologic maps for parts of Idaho, Montana, and Washington in U.S. Geological Survey Open File Report 2005-1235. Not all of the information was transferred to and incorporated in the spatial database due to physical file limitations. This report releases that part of the relational database that was completed for that earlier product. In addition to descriptive geologic information for the northern Rocky Mountains region, the relational database contains a substantial bibliography of geologic literature for the area. The relational database nrgeo.mdb (linked below) is available in Microsoft Access version 2000, a proprietary database program. The relational database contains data tables and other tables used to define terms, relationships between the data tables, and hierarchical relationships in the data; forms used to enter data; and queries used to extract data.

An Updated Comprehensive Risk Analysis for Radioisotopes Identified of High Risk to National Security in the Event of a Radiological Dispersion Device Scenario

NASA Astrophysics Data System (ADS)

Robinson, Alexandra R.

An updated global survey of radioisotope production and distribution was completed and subjected to a revised "down-selection methodology" to determine those radioisotopes that should be classified as potential national security risks based on availability and key physical characteristics that could be exploited in a hypothetical radiological dispersion device. The potential at-risk radioisotopes then were used in a modeling software suite known as Turbo FRMAC, developed by Sandia National Laboratories, to characterize plausible contamination maps known as Protective Action Guideline Zone Maps. This software also was used to calculate the whole body dose equivalent for exposed individuals based on various dispersion parameters and scenarios. Derived Response Levels then were determined for each radioisotope using: 1) target doses to members of the public provided by the U.S. EPA, and 2) occupational dose limits provided by the U.S. Nuclear Regulatory Commission. The limiting Derived Response Level for each radioisotope also was determined.

On the use of UAVs at active volcanoes: a case study from Volcan de Fuego, Guatemala

NASA Astrophysics Data System (ADS)

Watson, M.; Chigna, G.; Wood, K.; Richardson, T.; Liu, E.; Schellenberg, B.; Thomas, H.; Naismith, A.

2017-12-01

Volcan de Fuego, Guatemala, is one of Central America's most active systems. More than one hundred thousand people live within ten kilometres of the summit, many of them in profound poverty. Both the summit region and the volcano's steep sided valleys present significant access challenges, mostly associated with unacceptably high risk. Unmanned aerial vehicles (UAVs) offer the opportunity to observe, map and quantify emissions of tephra, gas, lava and heat flux and, using structure from motion algorithms, model dynamic topography. During recent campaigns, the team have completed observations of changes in the summit morphology immediately prior a paroxysmal eruption, mapped the key drainage systems after the fifth of May 2017 eruption and sampled the plume for tephra and gases using a range of onboard instruments. I will present the group's findings within a broader context of hazard mitigation and physical volcanology, and discuss the future of UAVs in volcano monitoring and research.

Construction of physical maps for the sex-specific regions of papaya sex chromosomes.

PubMed

Na, Jong-Kuk; Wang, Jianping; Murray, Jan E; Gschwend, Andrea R; Zhang, Wenli; Yu, Qingyi; Navajas-Pérez, Rafael; Feltus, F Alex; Chen, Cuixia; Kubat, Zdenek; Moore, Paul H; Jiang, Jiming; Paterson, Andrew H; Ming, Ray

2012-05-08

Papaya is a major fruit crop in tropical and subtropical regions worldwide. It is trioecious with three sex forms: male, female, and hermaphrodite. Sex determination is controlled by a pair of nascent sex chromosomes with two slightly different Y chromosomes, Y for male and Yh for hermaphrodite. The sex chromosome genotypes are XY (male), XYh (hermaphrodite), and XX (female). The papaya hermaphrodite-specific Yh chromosome region (HSY) is pericentromeric and heterochromatic. Physical mapping of HSY and its X counterpart is essential for sequencing these regions and uncovering the early events of sex chromosome evolution and to identify the sex determination genes for crop improvement. A reiterate chromosome walking strategy was applied to construct the two physical maps with three bacterial artificial chromosome (BAC) libraries. The HSY physical map consists of 68 overlapped BACs on the minimum tiling path, and covers all four HSY-specific Knobs. One gap remained in the region of Knob 1, the only knob structure shared between HSY and X, due to the lack of HSY-specific sequences. This gap was filled on the physical map of the HSY corresponding region in the X chromosome. The X physical map consists of 44 BACs on the minimum tiling path with one gap remaining in the middle, due to the nature of highly repetitive sequences. This gap was filled on the HSY physical map. The borders of the non-recombining HSY were defined genetically by fine mapping using 1460 F2 individuals. The genetically defined HSY spanned approximately 8.5 Mb, whereas its X counterpart extended about 5.4 Mb including a 900 Kb region containing the Knob 1 shared by the HSY and X. The 8.5 Mb HSY corresponds to 4.5 Mb of its X counterpart, showing 4 Mb (89%) DNA sequence expansion. The 89% increase of DNA sequence in HSY indicates rapid expansion of the Yh chromosome after genetic recombination was suppressed 2-3 million years ago. The genetically defined borders coincide with the common BACs on the minimum tiling paths of HSY and X. The minimum tiling paths of HSY and its X counterpart are being used for sequencing these X and Yh-specific regions.

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

NASA Astrophysics Data System (ADS)

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.

Mapping quantum-classical Liouville equation: projectors and trajectories.

PubMed

Kelly, Aaron; van Zon, Ramses; Schofield, Jeremy; Kapral, Raymond

2012-02-28

The evolution of a mixed quantum-classical system is expressed in the mapping formalism where discrete quantum states are mapped onto oscillator states, resulting in a phase space description of the quantum degrees of freedom. By defining projection operators onto the mapping states corresponding to the physical quantum states, it is shown that the mapping quantum-classical Liouville operator commutes with the projection operator so that the dynamics is confined to the physical space. It is also shown that a trajectory-based solution of this equation can be constructed that requires the simulation of an ensemble of entangled trajectories. An approximation to this evolution equation which retains only the Poisson bracket contribution to the evolution operator does admit a solution in an ensemble of independent trajectories but it is shown that this operator does not commute with the projection operators and the dynamics may take the system outside the physical space. The dynamical instabilities, utility, and domain of validity of this approximate dynamics are discussed. The effects are illustrated by simulations on several quantum systems.

Social values for ecosystem services (SolVES): Documentation and user manual, version 2.0

USGS Publications Warehouse

Sherrouse, Benson C.; Semmens, Darius J.

2012-01-01

In response to the need for incorporating quantified and spatially explicit measures of social values into ecosystem services assessments, the Rocky Mountain Geographic Science Center (RMGSC), in collaboration with Colorado State University, developed a geographic information system (GIS) application, Social Values for Ecosystem Services (SolVES). With version 2.0 (SolVES 2.0), RMGSC has improved and extended the functionality of SolVES, which was designed to assess, map, and quantify the perceived social values of ecosystem services. Social values such as aesthetics, biodiversity, and recreation can be evaluated for various stakeholder groups as distinguished by their attitudes and preferences regarding public uses, such as motorized recreation and logging. As with the previous version, SolVES 2.0 derives a quantitative, 10-point, social-values metric, the Value Index, from a combination of spatial and nonspatial responses to public attitude and preference surveys and calculates metrics characterizing the underlying environment, such as average distance to water and dominant landcover. Additionally, SolVES 2.0 integrates Maxent maximum entropy modeling software to generate more complete social value maps and to produce robust statistical models describing the relationship between the social values maps and explanatory environmental variables. The performance of these models can be evaluated for a primary study area, as well as for similar areas where primary survey data are not available but where social value mapping could potentially be completed using value-transfer methodology. SolVES 2.0 also introduces the flexibility for users to define their own social values and public uses, model any number and type of environmental variable, and modify the spatial resolution of analysis. With these enhancements, SolVES 2.0 provides an improved public domain tool for decisionmakers and researchers to evaluate the social values of ecosystem services and to facilitate discussions among diverse stakeholders regarding the tradeoffs among different ecosystem services in a variety of physical and social contexts ranging from forest and rangeland to coastal and marine.

Abstracts of the Annual Meeting of Planetary Geologic Mappers, Nampa, Idaho 2006

USGS Publications Warehouse

Gregg, Tracy K. P.; Tanaka, Kenneth L.; Saunders, R. Stephen

2006-01-01

Approximately 18 people attended this year's mappers meeting, and many more submitted abstracts and maps in absentia. The meeting was held on the campus of Northwest Nazarene University (NNU), and was graciously hosted by NNU's School of Health and Science. Planetary mapper Dr. Jim Zimbelman is an alumnus of NNU, and he was pivotal in organizing the meeting at this location. Oral and poster presentations were given on Friday, June 30. Drs. Bill Bonnichsen and Marty Godchaux led field excursions on July 1 and 2. USGS Astrogeology Team Chief Scientist Lisa Gaddis led the meeting with a brief discussion of the status of the planetary mapping program at USGS, and a more detailed description of the Lunar Mapping Program. She indicated that there is now a functioning website (http://astrogeology.usgs.gov/Projects/PlanetaryMapping/Lunar/) which shows which lunar quadrangles are available to be mapped. Like other USGS-published maps, proposals to complete a lunar geologic map must be submitted to the regular Planetary Geology & Geophysics (PGG) program for peer review. Jim Skinner (USGS) later presented the progress of the 1:2.5M-scale map of the lunar Copernicus quadrangle, and demonstrated the wide range of data that are available to support these maps. Gaddis and Skinner encouraged the community to submit proposals for generating lunar geologic maps, and reminded us that, as for all planetary maps, the project must be science-driven. Venus mapper Jim Zimbelman of the Smithsonian Institution (SI) presented the progress for his V-15 and V-16 quadrangles; Vicki Hansen (University of Minnesota Duluth) showed her preliminary work on V-45. Zimbelman addressed an issue that has been plaguing the community: 'delinquent Venus mappers'. In short, there were a number of Venus maps funded in the early 1990s under the Venus Data Analysis Program (VDAP). Unfortunately, funding for this program was cut before many Venus maps could be completed, resulting in about 10 Venus maps that were initially assigned but have shown little or no progress in many years. Zimbelman announced that he was not going to be able to complete quadrangle V-27 that he was assigned under VDAP, and was therefore returning that quadrangle to the community; he invited people to propose to PGG to map this quadrangle. Dave Williams of Arizona State University (ASU) reported on the progress of his global Io map. His mapping team recently received the completed, controlled global mosaic (using Voyager and Galileo images) from the USGS; this will be the basemap for their geologic mapping. Furthermore, the three team members (Laszlo Keszthelyi, David Crown and Dave Williams) have calibrated their individual mapping techniques by each mapping the same region for comparison. Thomas Doggett (ASU) showed progress on the global Europa map that was awarded to Ron Greeley. There was some consternation expressed on the methodology for determining relative ages of the lineaments; it was suggested that Vicki Hansen contact Patricio Figueredo (Exxon) directly, because Figueredo is the one who has been developing the lineament mapping techniques. Mars remains the most popular planet to map. Kevin Williams (SI) and Corey Fortezzo (SI) presented progress on their 1:500K maps in the Margaritifer Terra region of Mars. Jim Zimbelman described his 1:1M Medusae Fossae map, which is nearing completion. Peter Mouginis-Mark (University of Hawai'i) reported progress on his 1:200K maps of Tooting crater and of the Olympus Mons summit caldera. Jim Skinner discussed the progress of his and Ken Herkenhoff?s (USGS) map (1:500K) on the Olympia Cavi region of Mars? north pole, and Eric Kolb (USGS) presented work that he and Ken Tanaka (USGS) are completing on the Martian south pole. David Crown of the Planetary Science Institute (PSI) reported on numerous 1:500K and 1:1M maps in the Hellas and Hesperia regions of Mars. Frank Chuang (PSI) discussed progress on mapping the Deuteronilus Mensae reg

Frameshift Suppression in SACCHAROMYCES CEREVISIAE VI. Complete Genetic Map of Twenty-Five Suppressor Genes

PubMed Central

Gaber, Richard F.; Mathison, Lorilee; Edelman, Irv; Culbertson, Michael R.

1983-01-01

Five previously unmapped frameshift suppressor genes have been located on the yeast genetic map. In addition, we have further characterized the map positions of two suppressors whose approximate locations were determined in an earlier study. These results represent the completion of genetic mapping studies on all 25 of the known frameshift suppressor genes in yeast.—The approximate location of each suppressor gene was initially determined through the use of a set of mapping strains containing 61 signal markers distributed throughout the yeast genome. Standard meiotic linkage was assayed in crosses between strains carrying the suppressors and the mapping strains. Subsequent to these approximate linkage determinations, each suppressor gene was more precisely located in multi-point crosses. The implications of these mapping results for the genomic distribution of frameshift suppressor genes, which include both glycine and proline tRNA genes, are discussed. PMID:17246112

Adverse Effects of Electronic Cigarette Use: A Concept Mapping Approach

PubMed Central

Nasim, Aashir; Rosas, Scott

2016-01-01

Abstract Introduction: Electronic cigarette (ECIG) use has grown rapidly in popularity within a short period of time. As ECIG products continue to evolve and more individuals begin using ECIGs, it is important to understand the potential adverse effects that are associated with ECIG use. The purpose of this study was to examine and describe the acute adverse effects associated with ECIG use. Methods: This study used an integrated, mixed-method participatory approach called concept mapping (CM). Experienced ECIG users ( n = 85) provided statements that answered the focus prompt “A specific negative or unpleasant effect (ie, physical or psychological) that I have experienced either during or immediately after using an electronic cigarette device is…” in an online program. Participants sorted these statements into piles of common themes and rated each statement. Using multidimensional scaling and hierarchical cluster analysis, a concept map of the adverse effects statements was created. Results: Participants generated 79 statements that completed the focus prompt and were retained by researchers. Analysis generated a map containing five clusters that characterized perceived adverse effects of ECIG use: Stigma, Worry/Guilt, Addiction Signs, Physical Effects, and Device/Vapor Problems. Conclusions: ECIG use is associated with adverse effects that should be monitored as ECIGs continue to grow in popularity. If ECIGs are to be regulated, policies should be created that minimize the likelihood of user identified adverse effects. Implications: This article provides a list of adverse effects reported by experienced ECIG users. This article organizes these effects into a conceptual model that may be useful for better understanding the adverse outcomes associated with ECIG use. These identified adverse effects may be useful for health professionals and policy makers. Health professionals should be aware of potential negative health effects that may be associated with ECIG use and policy makers could design ECIG regulations that minimize the risk of the adverse effects reported by ECIG users in this study. PMID:26563262

Combinatorial Pooling Enables Selective Sequencing of the Barley Gene Space

PubMed Central

Lonardi, Stefano; Duma, Denisa; Alpert, Matthew; Cordero, Francesca; Beccuti, Marco; Bhat, Prasanna R.; Wu, Yonghui; Ciardo, Gianfranco; Alsaihati, Burair; Ma, Yaqin; Wanamaker, Steve; Resnik, Josh; Bozdag, Serdar; Luo, Ming-Cheng; Close, Timothy J.

2013-01-01

For the vast majority of species – including many economically or ecologically important organisms, progress in biological research is hampered due to the lack of a reference genome sequence. Despite recent advances in sequencing technologies, several factors still limit the availability of such a critical resource. At the same time, many research groups and international consortia have already produced BAC libraries and physical maps and now are in a position to proceed with the development of whole-genome sequences organized around a physical map anchored to a genetic map. We propose a BAC-by-BAC sequencing protocol that combines combinatorial pooling design and second-generation sequencing technology to efficiently approach denovo selective genome sequencing. We show that combinatorial pooling is a cost-effective and practical alternative to exhaustive DNA barcoding when preparing sequencing libraries for hundreds or thousands of DNA samples, such as in this case gene-bearing minimum-tiling-path BAC clones. The novelty of the protocol hinges on the computational ability to efficiently compare hundred millions of short reads and assign them to the correct BAC clones (deconvolution) so that the assembly can be carried out clone-by-clone. Experimental results on simulated data for the rice genome show that the deconvolution is very accurate, and the resulting BAC assemblies have high quality. Results on real data for a gene-rich subset of the barley genome confirm that the deconvolution is accurate and the BAC assemblies have good quality. While our method cannot provide the level of completeness that one would achieve with a comprehensive whole-genome sequencing project, we show that it is quite successful in reconstructing the gene sequences within BACs. In the case of plants such as barley, this level of sequence knowledge is sufficient to support critical end-point objectives such as map-based cloning and marker-assisted breeding. PMID:23592960

Analysis of the DFP/AFCS Systems for Compensating Gravity Distortions on the 70-Meter Antenna

NASA Technical Reports Server (NTRS)

Imbriale, William A.; Hoppe, Daniel J.; Rochblatt, David

2000-01-01

This paper presents the theoretical computations showing the expected performances for both systems. The basic analysis tool is a Physical Optics reflector analysis code that was ported to a parallel computer for faster execution times. There are several steps involved in computing the RF performance of the various systems. 1 . A model of the RF distortions of the main reflector is required. This model is based upon measured holography maps of the 70-meter antenna obtained at 3 elevation angles. The holography maps are then processed (using an appropriate gravity mechanical model of the dish) to provide surface distortion maps at all elevation angles. 2. From the surface distortion maps, ray optics is used to determine the theoretical shape of the DFP that will exactly phase compensate the distortions. 3. From the theoretical shape and a NASTRAN mechanical model of the plate, the actuator positions that generate a surface that provides the best RMS fit to the theoretical model are selected. Using the actuator positions and the NASTRAN model provides an accurate description of the actual mirror shape. 4. Starting from the mechanical drawings of the feed, a computed RF feed pattern is generated. This pattern is expanded into a set of spherical wave modes so that a complete near field analysis of the reflector system can be obtained. 5. For the array feed, the excitation coefficients that provide the maximum gain are computed using a phase conjugate technique. The basic experimental geometry consisted of a dual shaped 70-meter antenna system; a refocusing ellipse, a DFP and an array feed system. To provide physical insight to the systems performance, focal plane field plots are presented at several elevations. Curves of predicted performance are shown for the DFP system, monopulse tracking system, AFCS and combined DFP/AFCS system. The calculated results show that the combined DFP/AFCS system is capable of recovering the majority of the gain lost due to gravity distortion.

Combinatorial pooling enables selective sequencing of the barley gene space.

PubMed

Lonardi, Stefano; Duma, Denisa; Alpert, Matthew; Cordero, Francesca; Beccuti, Marco; Bhat, Prasanna R; Wu, Yonghui; Ciardo, Gianfranco; Alsaihati, Burair; Ma, Yaqin; Wanamaker, Steve; Resnik, Josh; Bozdag, Serdar; Luo, Ming-Cheng; Close, Timothy J

2013-04-01

For the vast majority of species - including many economically or ecologically important organisms, progress in biological research is hampered due to the lack of a reference genome sequence. Despite recent advances in sequencing technologies, several factors still limit the availability of such a critical resource. At the same time, many research groups and international consortia have already produced BAC libraries and physical maps and now are in a position to proceed with the development of whole-genome sequences organized around a physical map anchored to a genetic map. We propose a BAC-by-BAC sequencing protocol that combines combinatorial pooling design and second-generation sequencing technology to efficiently approach denovo selective genome sequencing. We show that combinatorial pooling is a cost-effective and practical alternative to exhaustive DNA barcoding when preparing sequencing libraries for hundreds or thousands of DNA samples, such as in this case gene-bearing minimum-tiling-path BAC clones. The novelty of the protocol hinges on the computational ability to efficiently compare hundred millions of short reads and assign them to the correct BAC clones (deconvolution) so that the assembly can be carried out clone-by-clone. Experimental results on simulated data for the rice genome show that the deconvolution is very accurate, and the resulting BAC assemblies have high quality. Results on real data for a gene-rich subset of the barley genome confirm that the deconvolution is accurate and the BAC assemblies have good quality. While our method cannot provide the level of completeness that one would achieve with a comprehensive whole-genome sequencing project, we show that it is quite successful in reconstructing the gene sequences within BACs. In the case of plants such as barley, this level of sequence knowledge is sufficient to support critical end-point objectives such as map-based cloning and marker-assisted breeding.

Live cell refractometry using Hilbert phase microscopy and confocal reflectance microscopy.

PubMed

Lue, Niyom; Choi, Wonshik; Popescu, Gabriel; Yaqoob, Zahid; Badizadegan, Kamran; Dasari, Ramachandra R; Feld, Michael S

2009-11-26

Quantitative chemical analysis has served as a useful tool for understanding cellular metabolisms in biology. Among many physical properties used in chemical analysis, refractive index in particular has provided molecular concentration that is an important indicator for biological activities. In this report, we present a method of extracting full-field refractive index maps of live cells in their native states. We first record full-field optical thickness maps of living cells by Hilbert phase microscopy and then acquire physical thickness maps of the same cells using a custom-built confocal reflectance microscope. Full-field and axially averaged refractive index maps are acquired from the ratio of optical thickness to physical thickness. The accuracy of the axially averaged index measurement is 0.002. This approach can provide novel biological assays of label-free living cells in situ.

Live Cell Refractometry Using Hilbert Phase Microscopy and Confocal Reflectance Microscopy†

PubMed Central

Lue, Niyom; Choi, Wonshik; Popescu, Gabriel; Yaqoob, Zahid; Badizadegan, Kamran; Dasari, Ramachandra R.; Feld, Michael S.

2010-01-01

Quantitative chemical analysis has served as a useful tool for understanding cellular metabolisms in biology. Among many physical properties used in chemical analysis, refractive index in particular has provided molecular concentration that is an important indicator for biological activities. In this report, we present a method of extracting full-field refractive index maps of live cells in their native states. We first record full-field optical thickness maps of living cells by Hilbert phase microscopy and then acquire physical thickness maps of the same cells using a custom-built confocal reflectance microscope. Full-field and axially averaged refractive index maps are acquired from the ratio of optical thickness to physical thickness. The accuracy of the axially averaged index measurement is 0.002. This approach can provide novel biological assays of label-free living cells in situ. PMID:19803506

LinkImpute: Fast and Accurate Genotype Imputation for Nonmodel Organisms.

PubMed

Money, Daniel; Gardner, Kyle; Migicovsky, Zoë; Schwaninger, Heidi; Zhong, Gan-Yuan; Myles, Sean

2015-09-15

Obtaining genome-wide genotype data from a set of individuals is the first step in many genomic studies, including genome-wide association and genomic selection. All genotyping methods suffer from some level of missing data, and genotype imputation can be used to fill in the missing data and improve the power of downstream analyses. Model organisms like human and cattle benefit from high-quality reference genomes and panels of reference genotypes that aid in imputation accuracy. In nonmodel organisms, however, genetic and physical maps often are either of poor quality or are completely absent, and there are no panels of reference genotypes available. There is therefore a need for imputation methods designed specifically for nonmodel organisms in which genomic resources are poorly developed and marker order is unreliable or unknown. Here we introduce LinkImpute, a software package based on a k-nearest neighbor genotype imputation method, LD-kNNi, which is designed for unordered markers. No physical or genetic maps are required, and it is designed to work on unphased genotype data from heterozygous species. It exploits the fact that markers useful for imputation often are not physically close to the missing genotype but rather distributed throughout the genome. Using genotyping-by-sequencing data from diverse and heterozygous accessions of apples, grapes, and maize, we compare LD-kNNi with several genotype imputation methods and show that LD-kNNi is fast, comparable in accuracy to the best-existing methods, and exhibits the least bias in allele frequency estimates. Copyright © 2015 Money et al.

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

PubMed

Pottorff, Marti; Wanamaker, Steve; Ma, Yaqin Q; Ehlers, Jeffrey D; Roberts, Philip A; Close, Timothy J

2012-01-01

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 cowpea varieties using marker-assisted selection (MAS).

Genetic and Physical Mapping of Candidate Genes for Resistance to Fusarium oxysporum f.sp. tracheiphilum Race 3 in Cowpea [Vigna unguiculata (L.) Walp

PubMed Central

Pottorff, Marti; Wanamaker, Steve; Ma, Yaqin Q.; Ehlers, Jeffrey D.; Roberts, Philip A.; Close, Timothy J.

2012-01-01

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 cowpea varieties using marker-assisted selection (MAS). PMID:22860000

The complete genomic sequence of egg drop syndrome virus strain AAV-2.

PubMed

Jin, Q; Zeng, L; Yang, F; Li, M; Hou, Y

1999-12-01

In the search for the genome of egg drop syndrome virus (EDSV-76) Chinese strain AAV-2, part of restriction endonuclease physical map is analyzed, the complete genomic library is organized. On basis of this, the complete genome nucleotide sequences (32 838 bp in length, including terminal structures) are determined. The data analysis shows: compared with the other Adenoviruses, strain AAV-2 has more disparity on genomic structure and the distribution of open reading frame (ORF). There are no clear E1, E3 and E4 regions in AAV-2 genome. Two segments located at both ends of genome (1.1 kb and 8.3 kb in length respectively) have no homology with the other adenovirus genomes. In addition, strain AAV-2 genome lacks ORFs encoding ElA, pV and pIX, which are common ORFs encoding early, lately proteins in Adenovirus. This reveals differences between EDSA-76, the sole standard strain of group III Avian Adenoviruses, and the other Avian Adenoviruses for the first time. It will help the search for Avian Adenovirus and will also help the search of all Adenoviruses.

Sensory cortex limits cortical maps and drives top-down plasticity in thalamocortical circuits

PubMed Central

Zembrzycki, Andreas; Chou, Shen-Ju; Ashery-Padan, Ruth; Stoykova, Anastassia; O’Leary, Dennis D.M.

2013-01-01

Summary Primary somatosensory cortex (S1) contains a complete body map that mirrors subcortical maps developed by peripheral sensory input projecting to sensory hindbrain, thalamus, then S1. Peripheral changes during development alter these maps through ‘bottom-up’ plasticity. Unknown is how S1 size influences map organization and if an altered S1 map feedbacks to affect subcortical maps. We show in mice that S1 is significantly reduced by cortex-specific deletion of Pax6, resulting in a reduced body map and loss of body representations by exclusion of later-differentiating sensory thalamocortical input. An initially normal sensory thalamus was re-patterned to match the aberrant S1 map by apoptotic deletion of thalamic neurons representing body parts with axons excluded from S1. Deleted representations were rescued by altering competition between thalamocortical axons by sensory deprivation or increasing S1. Thus, S1 size determined resolution and completeness of body maps and engaged ‘top-down’ plasticity that re-patterned sensory thalamus to match S1. PMID:23831966

Assessing Program Learning Objectives to Improve Undergraduate Physics Education

NASA Astrophysics Data System (ADS)

Menke, Carrie

2014-03-01

Our physics undergraduate program has five program learning objectives (PLOs) focusing on (1) physical principles, (2) mathematical expertise, (3) experimental technique, (4) communication and teamwork, and (5) research proficiency. One PLO is assessed each year, with the results guiding modifications in our curriculum and future assessment practices; we have just completed our first cycle of assessing all PLOs. Our approach strives to maximize the ease and applicability of our assessment practices while maintaining faculty's flexibility in course design and delivery. Objectives are mapped onto our core curriculum with identified coursework collected as direct evidence. We've utilized mostly descriptive rubrics, applying them at the course and program levels as well as sharing them with the students. This has resulted in more efficient assessment that is also applicable to reaccreditation efforts, higher inter-rater reliability than with other rubric types, and higher quality capstone projects. We've also found that the varied quality of student writing can interfere with our assessment of other objectives. This poster outlines our processes, resources, and how we have used PLO assessment to strengthen our undergraduate program.

Theobroma cacao: A genetically integrated physical map and genome-scale comparative synteny analysis

USDA-ARS?s Scientific Manuscript database

A comprehensive integrated genomic framework is considered a centerpiece of genomic research. In collaboration with the USDA-ARS (SHRS) and Mars Inc., the Clemson University Genomics Institute (CUGI) has developed a genetically anchored physical map of the T. cacao genome. Three BAC libraries contai...

Link Maps and Map Meetings: Scaffolding Student Learning

ERIC Educational Resources Information Center

Lindstrom, Christine; Sharma, Manjula D.

2009-01-01

With student numbers decreasing and traditional teaching methods having been found inefficient, it is widely accepted that alternative teaching methods need to be explored in tertiary physics education. In 2006 a different teaching environment was offered to 244 first year students with little or no prior formal instruction in physics. Students…

The world’s user-generated road map is more than 80% complete

PubMed Central

2017-01-01

OpenStreetMap, a crowdsourced geographic database, provides the only global-level, openly licensed source of geospatial road data, and the only national-level source in many countries. However, researchers, policy makers, and citizens who want to make use of OpenStreetMap (OSM) have little information about whether it can be relied upon in a particular geographic setting. In this paper, we use two complementary, independent methods to assess the completeness of OSM road data in each country in the world. First, we undertake a visual assessment of OSM data against satellite imagery, which provides the input for estimates based on a multilevel regression and poststratification model. Second, we fit sigmoid curves to the cumulative length of contributions, and use them to estimate the saturation level for each country. Both techniques may have more general use for assessing the development and saturation of crowd-sourced data. Our results show that in many places, researchers and policymakers can rely on the completeness of OSM, or will soon be able to do so. We find (i) that globally, OSM is ∼83% complete, and more than 40% of countries—including several in the developing world—have a fully mapped street network; (ii) that well-governed countries with good Internet access tend to be more complete, and that completeness has a U-shaped relationship with population density—both sparsely populated areas and dense cities are the best mapped; and (iii) that existing global datasets used by the World Bank undercount roads by more than 30%. PMID:28797037

Systematic mapping review of the factors influencing physical activity and sedentary behaviour in ethnic minority groups in Europe: a DEDIPAC study.

PubMed

Langøien, Lars Jørun; Terragni, Laura; Rugseth, Gro; Nicolaou, Mary; Holdsworth, Michelle; Stronks, Karien; Lien, Nanna; Roos, Gun

2017-07-24

Physical activity and sedentary behaviour are associated with health and wellbeing. Studies indicate that ethnic minority groups are both less active and more sedentary than the majority population and that factors influencing these behaviours may differ. Mapping the factors influencing physical activity and sedentary behaviour among ethnic minority groups living in Europe can help to identify determinants of physical activity and sedentary behaviour, research gaps and guide future research. A systematic mapping review was conducted to map the factors associated with physical activity and sedentary behaviour among ethnic minority groups living in Europe (protocol PROSPERO ID = CRD42014014575). Six databases were searched for quantitative and qualitative research published between 1999 and 2014. In synthesizing the findings, all factors were sorted and structured into clusters following a data driven approach and concept mapping. Sixty-three articles were identified out of 7794 returned by the systematic search. These included 41 quantitative and 22 qualitative studies. Of these 58 focused on physical activity, 5 on both physical activity and sedentary behaviour and none focused on sedentary behaviour. The factors associated with physical activity and sedentary behaviour were grouped into eight clusters. Social & cultural environment (n = 55) and Psychosocial (39) were the clusters containing most factors, followed by Physical environment & accessibility (33), Migration context (15), Institutional environment (14), Social & material resources (12), Health and health communication (12), Political environment (3). An important finding was that cultural and religious issues, in particular those related to gender issues, were recurring factors across the clusters. Physical activity and sedentary behaviour among ethnic minority groups living in Europe are influenced by a wide variety of factors, especially informed by qualitative studies. More comparative studies are needed as well as inclusion of a wider spectrum of the diverse ethnic minority groups resettled in different European countries. Few studies have investigated factors influencing sedentary behaviour. It is important in the future to address specific factors influencing physical activity and sedentary behaviour among different ethnic minority groups in order to plan and implement effective interventions.

IRS Spectral Maps of Photoevaporative Columns in M16, Carina, and the Galactic Center

NASA Astrophysics Data System (ADS)

Cotera, Angela; Healy, Kevin; Hester, Jeff; Sellgren, Kris; Simpson, Janet; Stolovy, Susan

2008-03-01

Photoevaporated columns of dust and gas - also called elephant trunks, pillars or fingers - are found in the periphery of H II regions, and have been observed within the Galaxy, the SMC and the LMC. These features are sites of current star formation, but the question remains whether the columns persist because stars formed in the denser regions prior to interactions with the UV radiation and stellar winds of nearby massive stars, or because of core collapse resulting from these interactions. Mapping the distribution of the physical states of the dust and gas in these columns is a necessary step towards understanding the possible star formation mechanisms within these dynamic objects. We propose to obtain IRS spectral maps of columns within M 16, the Carina nebula, and the Galactic center (GC) to understand the effects on these pillars from different stellar populations and initial conditions, and to better understand star formation in the GC. Within the spectral range of the high resolution IRS modes (9.9-37.2 micron) there are a wealth of molecular, atomic and PAH emission lines that will enable us to determine the excitation state, dust and gas temperatures, and probe the shock characteristics within the columns. Using the IRS spectral mapping mode, in conjunction with the CUBISM tool and the CLOUDY H II region model code, we will be able to construct detailed maps of the accessible emission lines and derived parameters for each column. IRS mapping of elephant trunks has not been done to date, yet provides a wealth of information unobtainable for the foreseeable future once Cycle 5 is completed.

Planck 2015 results. XXII. A map of the thermal Sunyaev-Zeldovich effect

NASA Astrophysics Data System (ADS)

Planck Collaboration; Aghanim, N.; Arnaud, M.; Ashdown, M.; Aumont, J.; Baccigalupi, C.; Banday, A. J.; Barreiro, R. B.; Bartlett, J. G.; Bartolo, N.; Battaner, E.; Battye, R.; Benabed, K.; Benoît, A.; Benoit-Lévy, A.; Bernard, J.-P.; Bersanelli, M.; Bielewicz, P.; Bock, J. J.; Bonaldi, A.; Bonavera, L.; Bond, J. R.; Borrill, J.; Bouchet, F. R.; Burigana, C.; Butler, R. C.; Calabrese, E.; Cardoso, J.-F.; Catalano, A.; Challinor, A.; Chiang, H. C.; Christensen, P. R.; Churazov, E.; Clements, D. L.; Colombo, L. P. L.; Combet, C.; Comis, B.; Coulais, A.; Crill, B. P.; Curto, A.; Cuttaia, F.; Danese, L.; Davies, R. D.; Davis, R. J.; de Bernardis, P.; de Rosa, A.; de Zotti, G.; Delabrouille, J.; Désert, F.-X.; Dickinson, C.; Diego, J. M.; Dolag, K.; Dole, H.; Donzelli, S.; Doré, O.; Douspis, M.; Ducout, A.; Dupac, X.; Efstathiou, G.; Elsner, F.; Enßlin, T. A.; Eriksen, H. K.; Fergusson, J.; Finelli, F.; Forni, O.; Frailis, M.; Fraisse, A. A.; Franceschi, E.; Frejsel, A.; Galeotta, S.; Galli, S.; Ganga, K.; Génova-Santos, R. T.; Giard, M.; González-Nuevo, J.; Górski, K. M.; Gregorio, A.; Gruppuso, A.; Gudmundsson, J. E.; Hansen, F. K.; Harrison, D. L.; Henrot-Versillé, S.; Hernández-Monteagudo, C.; Herranz, D.; Hildebrandt, S. R.; Hivon, E.; Holmes, W. A.; Hornstrup, A.; Huffenberger, K. M.; Hurier, G.; Jaffe, A. H.; Jones, W. C.; Juvela, M.; Keihänen, E.; Keskitalo, R.; Kneissl, R.; Knoche, J.; Kunz, M.; Kurki-Suonio, H.; Lacasa, F.; Lagache, G.; Lähteenmäki, A.; Lamarre, J.-M.; Lasenby, A.; Lattanzi, M.; Leonardi, R.; Lesgourgues, J.; Levrier, F.; Liguori, M.; Lilje, P. B.; Linden-Vørnle, M.; López-Caniego, M.; Macías-Pérez, J. F.; Maffei, B.; Maggio, G.; Maino, D.; Mandolesi, N.; Mangilli, A.; Maris, M.; Martin, P. G.; Martínez-González, E.; Masi, S.; Matarrese, S.; Melchiorri, A.; Melin, J.-B.; Migliaccio, M.; Miville-Deschênes, M.-A.; Moneti, A.; Montier, L.; Morgante, G.; Mortlock, D.; Munshi, D.; Murphy, J. A.; Naselsky, P.; Nati, F.; Natoli, P.; Noviello, F.; Novikov, D.; Novikov, I.; Paci, F.; Pagano, L.; Pajot, F.; Paoletti, D.; Pasian, F.; Patanchon, G.; Perdereau, O.; Perotto, L.; Pettorino, V.; Piacentini, F.; Piat, M.; Pierpaoli, E.; Pietrobon, D.; Plaszczynski, S.; Pointecouteau, E.; Polenta, G.; Ponthieu, N.; Pratt, G. W.; Prunet, S.; Puget, J.-L.; Rachen, J. P.; Reinecke, M.; Remazeilles, M.; Renault, C.; Renzi, A.; Ristorcelli, I.; Rocha, G.; Rossetti, M.; Roudier, G.; Rubiño-Martín, J. A.; Rusholme, B.; Sandri, M.; Santos, D.; Sauvé, A.; Savelainen, M.; Savini, G.; Scott, D.; Spencer, L. D.; Stolyarov, V.; Stompor, R.; Sunyaev, R.; Sutton, D.; Suur-Uski, A.-S.; Sygnet, J.-F.; Tauber, J. A.; Terenzi, L.; Toffolatti, L.; Tomasi, M.; Tramonte, D.; Tristram, M.; Tucci, M.; Tuovinen, J.; Valenziano, L.; Valiviita, J.; Van Tent, B.; Vielva, P.; Villa, F.; Wade, L. A.; Wandelt, B. D.; Wehus, I. K.; Yvon, D.; Zacchei, A.; Zonca, A.

2016-09-01

We have constructed all-sky Compton parameters maps, y-maps, of the thermal Sunyaev-Zeldovich (tSZ) effect by applying specifically tailored component separation algorithms to the 30 to 857 GHz frequency channel maps from the Planck satellite. These reconstructed y-maps are delivered as part of the Planck 2015 release. The y-maps are characterized in terms of noise properties and residual foreground contamination, mainly thermal dust emission at large angular scales, and cosmic infrared background and extragalactic point sources at small angular scales. Specific masks are defined to minimize foreground residuals and systematics. Using these masks, we compute the y-map angular power spectrum and higher order statistics. From these we conclude that the y-map is dominated by tSZ signal in the multipole range, 20 <ℓ< 600. We compare the measured tSZ power spectrum and higher order statistics to various physically motivated models and discuss the implications of our results in terms of cluster physics and cosmology.

Concept mapping: Impact on content and organization of technical writing in science

NASA Astrophysics Data System (ADS)

Conklin, Elaine

The purpose of this quasi-experimental study was to compare the relationship between concept mapping and the content and organization of technical writing of ninth grade biology students. All students in the study completed a prewriting assessment. The experimental group received concept map instruction while the control group performed alternate tasks. After instruction, both groups completed the postwriting assessment and mean differences were compared using the t statistic for independent measures. Additionally, scores on the concept map were correlated to the scores on the postwriting assessment using the Pearson correlation coefficient. Finally, attitudes toward using concept mapping as a prewriting strategy were analyzed using the t statistic for repeated measures. Concept mapping significantly improved the depth of content; however, no statistical significance was detected for organization. Students had a significantly positive change in attitude toward using concept mapping to plan a writing assessment, organize information, and think creatively. The findings indicated concept mapping had a positive effect on the students' abilities to select concepts appropriate to respond to a writing prompt, integrate facts into complete thoughts and ideas, and apply it in novel situations. Concept maps appeared to facilitate learning how to process information and transform it into expository writing. Sustained practice in designing concept maps may influence organization as well as content. Developing a systematic approach to synthesize well-organized and coherent arguments in response to a writing task is an invaluable communication skill that has implications for the learner across disciplines and prepares them for higher education and the workforce.

Assessment of Groundwater Susceptibility to Non-Point Source Contaminants Using Three-Dimensional Transient Indexes.

PubMed

Zhang, Yong; Weissmann, Gary S; Fogg, Graham E; Lu, Bingqing; Sun, HongGuang; Zheng, Chunmiao

2018-06-05

Groundwater susceptibility to non-point source contamination is typically quantified by stable indexes, while groundwater quality evolution (or deterioration globally) can be a long-term process that may last for decades and exhibit strong temporal variations. This study proposes a three-dimensional (3- d ), transient index map built upon physical models to characterize the complete temporal evolution of deep aquifer susceptibility. For illustration purposes, the previous travel time probability density (BTTPD) approach is extended to assess the 3- d deep groundwater susceptibility to non-point source contamination within a sequence stratigraphic framework observed in the Kings River fluvial fan (KRFF) aquifer. The BTTPD, which represents complete age distributions underlying a single groundwater sample in a regional-scale aquifer, is used as a quantitative, transient measure of aquifer susceptibility. The resultant 3- d imaging of susceptibility using the simulated BTTPDs in KRFF reveals the strong influence of regional-scale heterogeneity on susceptibility. The regional-scale incised-valley fill deposits increase the susceptibility of aquifers by enhancing rapid downward solute movement and displaying relatively narrow and young age distributions. In contrast, the regional-scale sequence-boundary paleosols within the open-fan deposits "protect" deep aquifers by slowing downward solute movement and displaying a relatively broad and old age distribution. Further comparison of the simulated susceptibility index maps to known contaminant distributions shows that these maps are generally consistent with the high concentration and quick evolution of 1,2-dibromo-3-chloropropane (DBCP) in groundwater around the incised-valley fill since the 1970s'. This application demonstrates that the BTTPDs can be used as quantitative and transient measures of deep aquifer susceptibility to non-point source contamination.

User identified positive outcome expectancies of electronic cigarette use: A concept mapping study.

PubMed

Soule, Eric K; Maloney, Sarah F; Guy, Mignonne C; Eissenberg, Thomas; Fagan, Pebbles

2017-05-01

Electronic cigarette (ECIG) use is growing in popularity, but little is known about the perceived positive outcomes of ECIG use. This study used concept mapping (CM) to examine positive ECIG outcome expectancies. Sixty-three past 30-day ECIG users (38.1% female) between the ages of 18 and 64 (M = 37.8, SD = 13.3) completed a CM module. In an online program, participants provided statements that completed a prompt: "A specific positive, enjoyable, or exciting effect (i.e., physical or psychological) that I have experienced WHILE USING or IMMEDIATELY AFTER USING an electronic cigarette/electronic vaping device is. . . ." Participants (n = 35) sorted 123 statements into "piles" of similar content and rated (n = 43) each statement on a 7-point scale (1 = Definitely NOT a positive effect to 7 = Definitely a positive effect). A cluster map was created using data from the sorting task, and analysis indicated a 7 cluster model of positive ECIG use outcome expectancies: Therapeutic/Affect Regulation, High/Euphoria, Sensation Enjoyment, Perceived Health Effects, Benefits of Decreased Cigarette Use, Convenience, and Social Impacts. The Perceived Health Effects cluster was rated highest, although all mean ratings were greater than 4.69. Mean cluster ratings were compared, and females, younger adults, past 30-day cigarette smokers, users of more "advanced" ECIG devices, and nonlifetime (less than 100 lifetime cigarettes) participants rated certain clusters higher than comparison groups (ps < 0.05). ECIG users associate positive outcomes with ECIG use. ECIG outcome expectancies may affect product appeal and tobacco use behaviors and should be examined further to inform regulatory policies. (PsycINFO Database Record (c) 2017 APA, all rights reserved).

A new edition of the Mars 1:5,000,000 map series

NASA Technical Reports Server (NTRS)

Batson, R. M.; Mcewen, Alfred S.; Wu, Sherman S. C.

1991-01-01

A new edition of the Mars 1:5,000,000 scale map series is in preparation. Two sheets will be made for each quadrangle. Sheet one will show shaded relief, contours, and nomenclature. Sheet 2 will be a full-color photomosaic prepared on the Mars digital image model (MDIM) base co-registered with the Mars low-resolution color database. The latter will have an abbreviated graticule (latitude/longitude ticks only) and no other line overprint. The four major databases used to assemble this series are now virtually complete. These are: (1) Viking-revised shaded relief maps at 1:5,000,000 scale; (2) contour maps at 1:2,000,000 scale; (3) the Mars digital image model; and (4) a color image mosaic of Mars. Together, these databases form the most complete planetwide cartographic definition of Mars that can be compiled with existing data. The new edition will supersede the published Mars 1:5,000,000 scale maps, including the original shaded relief and topographic maps made primarily with Mariner 9 data and the Viking-revised shaded relief and controlled photomosaic series. Publication of the new series will begin in late 1991 or early 1992, and it should be completed in two years.

Using maps in genealogy

USGS Publications Warehouse

,

1999-01-01

Maps are one of many sources you may need to complete a family tree. In genealogical research, maps can provide clues to where our ancestors may have lived and where to look for written records about them. Beginners should master basic genealogical research techniques before starting to use topographic maps.

S70-50761

NASA Image and Video Library

1970-10-12

S70-50761 (September 1970) --- This map prepared by Mapping Sciences Laboratory, Science & Applications Directorate at the Manned Spacecraft Center, shows the projected Apollo landing sites. Apollo 11 completed a successful lunar landing mission in the Sea of Tranquility in July 1969. Apollo 12 completed a successful lunar landing mission in the Ocean of Storms in November 1969.

30 CFR 203.86 - What is in a G&G report?

Code of Federal Regulations, 2010 CFR

2010-07-01

... completions, and indicating which sands and fault blocks will be targeted for completion or recompletion. (c... top and base of sand maps showing well and seismic shot point locations; (2) Isopach maps for net sand... description of anticipated hydrocarbon quality (i.e., specific gravity); and (3) The ranges within the...

Introducing and Developing Map Skills with Persons Having Mild or Moderate Learning Difficulties.

ERIC Educational Resources Information Center

Renfrew, Tom

1997-01-01

A British project found that appropriate training in map skills enabled children and adults with mild mental retardation to complete a white color-coded orienteering course with minimal assistance but that persons with moderate mental retardation required more assistance and instruction time to complete course objectives. Describes approaches to…

Vegetation inventory, mapping, and classification report, Fort Bowie National Historic Site

USGS Publications Warehouse

Studd, Sarah; Fallon, Elizabeth; Crumbacher, Laura; Drake, Sam; Villarreal, Miguel

2013-01-01

A vegetation mapping and characterization effort was conducted at Fort Bowie National Historic Site in 2008-10 by the Sonoran Desert Network office in collaboration with researchers from the Office of Arid lands studies, Remote Sensing Center at the University of Arizona. This vegetation mapping effort was completed under the National Park Service Vegetation Inventory program which aims to complete baseline mapping inventories at over 270 national park units. The vegetation map data was collected to provide park managers with a digital map product that met national standards of spatial and thematic accuracy, while also placing the vegetation into a regional and even national context. Work comprised of three major field phases 1) concurrent field-based classification data collection and mapping (map unit delineation), 2) development of vegetation community types at the National Vegetation Classification alliance or association level and 3) map accuracy assessment. Phase 1 was completed in late 2008 and early 2009. Community type descriptions were drafted to meet the then-current hierarchy (version 1) of the National Vegetation Classification System (NVCS) and these were applied to each of the mapped areas. This classification was developed from both plot level data and censused polygon data (map units) as this project was conducted as a concurrent mapping and classification effort. The third stage of accuracy assessment completed in the fall of 2010 consisted of a complete census of each map unit and was conducted almost entirely by park staff. Following accuracy assessment the map was amended where needed and final products were developed including this report, a digital map and full vegetation descriptions. Fort Bowie National Historic Site covers only 1000 acres yet has a relatively complex landscape, topography and geology. A total of 16 distinct communities were described and mapped at Fort Bowie NHS. These ranged from lush riparian woodlands lining the ephemeral washes dominated by Ash (Fraxinus), Walnut (Juglans) and Hackberry (Celtis) to drier upland sites typical of desert scrub and semi-desert grassland communities. These shrublands boast a diverse mixture of shrubs, succulents and perennial grasses. In many places the vegetation could be seen to echo the history of the fort site, with management of shrub encroachment apparent in the grasslands and the paucity of trees evidence of historic cutting for timber and fire wood. Seven of the 16 vegetation types were ‘accepted’ types within the NVC while the others have been described here as specific to FOBO and have proposed status within the NVC. The map was designed to facilitate ecologically-based natural resources management and research. The map is in digital format within a geodatabase structure that allows for complex relationships to be established between spatial and tabular data, and makes accessing the product easy and seamless. The GIS format allows user flexibility and will also enable updates to be made as new information becomes available (such as revised NVC codes or vegetation type names) or in the event of major disturbance events that could impact the vegetation.

A consensus genetic map of sorghum that integrates multiple component maps and high-throughput diversity array technology (DArT) markers

USDA-ARS?s Scientific Manuscript database

This final consensus map has allowed us to map a larger number of markers than possible in any individual map of sorghum, to obtain a more complete coverage of the sorghum genome and to fill a number of gaps on individual maps. In addition to overall general consistency of marker order across indiv...

Protecting water quality in the watershed

DOE Office of Scientific and Technical Information (OSTI.GOV)

James, C.R.; Johnson, K.E.; Stewart, E.H.

1994-08-01

This article highlights the water quality component of a watershed management plan being developed for the San Francisco (CA) Water Department. The physical characteristics of the 63,000-acre watersheds were analyzed for source and transport vulnerability for five groups of water quality parameters--particulates, THM precursors, microorganisms (Giardia and cryptosporidium), nutrients (nitrogen and phosphorus), and synthetic organic chemicals--and vulnerability zones were mapped. Mapping was achieved through the use of an extensive geographic information system (GIS) database. Each water quality vulnerability zone map was developed based on five watershed physical characteristics--soils, slope, vegetation, wildlife concentration, and proximity to water bodies--and their relationships tomore » each of the five groups of water quality parameters. An approach to incorporate the watershed physical characteristics information into the five water quality vulnerability zone maps was defined and verified. The composite approach was based in part on information gathered from existing watershed management plans.« less

Mapping repulsive to attractive interaction in driven-dissipative quantum systems

NASA Astrophysics Data System (ADS)

Li, Andy C. Y.; Koch, Jens

2017-11-01

Repulsive and attractive interactions usually lead to very different physics. Striking exceptions exist in the dynamics of driven-dissipative quantum systems. For the example of a photonic Bose-Hubbard dimer, we establish a one-to-one mapping relating cases of onsite repulsion and attraction. We prove that the mapping is valid for an entire class of Markovian open quantum systems with a time-reversal-invariant Hamiltonian and physically meaningful inverse-sign Hamiltonian. To underline the broad applicability of the mapping, we illustrate the one-to-one correspondence between the nonequilibrium dynamics in a geometrically frustrated spin lattice and those in a non-frustrated partner lattice.

Partnering with Youth to Map Their Neighborhood Environments: A Multi-Layered GIS Approach

PubMed Central

Topmiller, Michael; Jacquez, Farrah; Vissman, Aaron T.; Raleigh, Kevin; Miller-Francis, Jenni

2014-01-01

Mapping approaches offer great potential for community-based participatory researchers interested in displaying youth perceptions and advocating for change. We describe a multi-layered approach for gaining local knowledge of neighborhood environments that engages youth as co-researchers and active knowledge producers. By integrating geographic information systems (GIS) with environmental audits, an interactive focus group, and sketch mapping, the approach provides a place-based understanding of physical activity resources from the situated experience of youth. Youth report safety and a lack of recreational resources as inhibiting physical activity. Maps reflecting youth perceptions aid policy-makers in making place-based improvements for youth neighborhood environments. PMID:25423245

Geologic Mapping of V-19

NASA Technical Reports Server (NTRS)

Martin, P.; Stofan, E. R.; Guest, J. E.

2009-01-01

A geologic map of the Sedna Planitia (V-19) quadrangle is being completed at the 1:5,000,000 scale as part of the NASA Planetary Geologic Mapping Program, and will be submitted for review by September 2009.

The customer-centered innovation map.

PubMed

Bettencourt, Lance A; Ulwick, Anthony W

2008-05-01

We all know that people "hire" products and services to get a job done. Surgeons hire scalpels to dissect soft tissue. Janitors hire soap dispensers and paper towels to remove grime from their hands. To find ways to innovate, it's critical to deconstruct the job the customer is trying to get done from beginning to end, to gain a complete view of all the points at which a customer might desire more help from a product or service. A methodology called job mapping helps companies analyze the biggest drawbacks of the products and services customers currently use and discover opportunities for innovation. It involves breaking down the task the customer wants to accomplish into the eight universal steps of a job: (1) defining the objectives, (2) locating the necessary inputs, (3) preparing the physical environment, (4) confirming that everything is ready, (5) executing the task, (6) monitoring its progress, (7) making modifications as necessary, and (8) concluding the job. Job mapping differs substantively from process mapping in that the goal is to identify what customers are trying to get done at every step, not what they are doing currently. For example, when an anesthesiologist checks a monitor during a surgical procedure, the action taken is just a means to the end. Detecting a change in patient vital signs is the job the doctor is trying to get done. Within each of the discrete steps lie multiple opportunities for making the job simpler, easier, or faster. By mapping out every step of the job and locating those opportunities, companies can discover new ways to differentiate their offerings.

Terrain analysis of the racetrack basin and the sliding rocks of Death Valley

USGS Publications Warehouse

Messina, P.; Stoffer, P.

2000-01-01

The Racetrack Playa's unusual surface features known as sliding rocks have been the subject of an ongoing debate and several mapping projects for half a century, although the causative mechanism remains unresolved. Clasts ranging in volume from large pebbles to medium boulders have, unwitnessed, maneuvered around the nearly flat dry lake over considerable distances. The controversy has persisted partly because eyewitness accounts of the phenomenon continue to be lacking, and the earlier mapping missions were limited in method and geographic range. In July 1996, we generated the first complete map of all observed sliding rock trails by submeter differential Global Positioning System (DGPS) mapping technology. The resulting map shows 162 sliding rocks and associated trails to an accuracy of approximately 30 cm. Although anemometer data are not available in the Racetrack wilderness, wind is clearly a catalyst for sliding rock activity; an inferred wind rose was constructed from DGPS trail segment data. When the entire trail network is examined in plan, some patterns emerge, although other (perhaps expected relations) remain elusive: terrain analysis of the surrounding topography demonstrates that the length and morphology of trails are more closely related to where rocks rested at the onset of motion than to any physical attribute of the rocks themselves. Follow-up surveys in May 1998, May 1999, August 1999, and November 1999 revealed little modification of the July, 1996 sliding rock configuration. Only four rocks were repositioned during the El Nino winter of 1997-1998, suggesting that activity may not be restricted to winter storms. (C) 2000 Elsevier Science B.V. All rights reserved.

Involving Families and Communities in CSPAP Development Using Asset Mapping

ERIC Educational Resources Information Center

Allar, Ishonté; Elliott, Eloise; Jones, Emily; Kristjansson, Alfgeir L.; Taliaferro, Andrea; Bulger, Sean M.

2017-01-01

The purpose of this article is to provide an introduction to asset mapping as a systematic approach to facilitating increased family and community involvement in comprehensive school physical activity programs (CSPAP). It includes a brief summary of the literature related to the importance of family and community in children's physical activity…

Using Content Maps to Measure Content Development in Physical Education: Validation and Application

ERIC Educational Resources Information Center

Ward, Phillip; Dervent, Fatih; Lee, Yun Soo; Ko, Bomna; Kim, Insook; Tao, Wang

2017-01-01

Purpose: This study reports on our efforts toward extending the conceptual understanding of content development in physical education by validating content maps as a measurement tool, examining new categories of instructional tasks to describe content development and validating formulae that can be used to evaluate depth of content development.…

Visualization of Discontinuous Galerkin Based High-Order Methods

DTIC Science & Technology

2015-08-19

function and the reference- to physical- space mapping functions. This formulation can be used to measure the quality of a high-order element and also for...to physical- space mapping functions. This formulation can be used to measure the quality of a high-order element and also for AMR. We find that the

Missouri Assessment Program (MAP), Spring 2000: Elementary Health/Physical Education, Released Items, Grade 5.

ERIC Educational Resources Information Center

Missouri State Dept. of Elementary and Secondary Education, Jefferson City.

This document presents 10 released items from the Health/Physical Education Missouri Assessment Program (MAP) test given in the spring of 2000 to fifth graders. Items from the test sessions include: selected-response (multiple choice), constructed-response, and a performance event. The selected-response items consist of individual questions…

A High-Resolution SNP Array-Based Linkage Map Anchors a New Domestic Cat Draft Genome Assembly and Provides Detailed Patterns of Recombination.

PubMed

Li, Gang; Hillier, LaDeana W; Grahn, Robert A; Zimin, Aleksey V; David, Victor A; Menotti-Raymond, Marilyn; Middleton, Rondo; Hannah, Steven; Hendrickson, Sher; Makunin, Alex; O'Brien, Stephen J; Minx, Pat; Wilson, Richard K; Lyons, Leslie A; Warren, Wesley C; Murphy, William J

2016-06-01

High-resolution genetic and physical maps are invaluable tools for building accurate genome assemblies, and interpreting results of genome-wide association studies (GWAS). Previous genetic and physical maps anchored good quality draft assemblies of the domestic cat genome, enabling the discovery of numerous genes underlying hereditary disease and phenotypes of interest to the biomedical science and breeding communities. However, these maps lacked sufficient marker density to order thousands of shorter scaffolds in earlier assemblies, which instead relied heavily on comparative mapping with related species. A high-resolution map would aid in validating and ordering chromosome scaffolds from existing and new genome assemblies. Here, we describe a high-resolution genetic linkage map of the domestic cat genome based on genotyping 453 domestic cats from several multi-generational pedigrees on the Illumina 63K SNP array. The final maps include 58,055 SNP markers placed relative to 6637 markers with unique positions, distributed across all autosomes and the X chromosome. Our final sex-averaged maps span a total autosomal length of 4464 cM, the longest described linkage map for any mammal, confirming length estimates from a previous microsatellite-based map. The linkage map was used to order and orient the scaffolds from a substantially more contiguous domestic cat genome assembly (Felis catus v8.0), which incorporated ∼20 × coverage of Illumina fragment reads. The new genome assembly shows substantial improvements in contiguity, with a nearly fourfold increase in N50 scaffold size to 18 Mb. We use this map to report probable structural errors in previous maps and assemblies, and to describe features of the recombination landscape, including a massive (∼50 Mb) recombination desert (of virtually zero recombination) on the X chromosome that parallels a similar desert on the porcine X chromosome in both size and physical location. Copyright © 2016 Li et al.

C. elegans network biology: a beginning.

PubMed Central

Piano, Fabio; Gunsalus, Kristin C; Hill, David E; Vidal, Marc

2006-01-01

The architecture and dynamics of molecular networks can provide an understanding of complex biological processes complementary to that obtained from the in-depth study of single genes and proteins. With a completely sequenced and well-annotated genome, a fully characterized cell lineage, and powerful tools available to dissect development, Caenorhabditis elegans, among metazoans, provides an optimal system to bridge cellular and organismal biology with the global properties of macromolecular networks. This chapter considers omic technologies available for C. elegans to describe molecular networks--encompassing transcriptional and phenotypic profiling as well as physical interaction mapping--and discusses how their individual and integrated applications are paving the way for a network-level understanding of C. elegans biology. PMID:18050437

Proteome-scale human interactomics

PubMed Central

Luck, Katja; Sheynkman, Gloria M.; Zhang, Ivy; Vidal, Marc

2017-01-01

Cellular functions are mediated by complex interactome networks of physical, biochemical, and functional interactions between DNA sequences, RNA molecules, proteins, lipids, and small metabolites. A thorough understanding of cellular organization requires accurate and relatively complete models of interactome networks at proteome-scale. The recent publication of four human protein-protein interaction (PPI) maps represents a technological breakthrough and an unprecedented resource for the scientific community, heralding a new era of proteome-scale human interactomics. Our knowledge gained from these and complementary studies provides fresh insights into the opportunities and challenges when analyzing systematically generated interactome data, defines a clear roadmap towards the generation of a first reference interactome, and reveals new perspectives on the organization of cellular life. PMID:28284537

GIS walking maps to promote physical activity in low-income public housing communities: a qualitative examination.

PubMed

McNeill, Lorna H; Emmons, Karen

2012-01-01

Walking is the most commonly reported leisure-time activity. Members of racial/ethnic minority groups and people of low socioeconomic status disproportionately live in urban environments that are perceived to be unsafe, thereby reducing opportunities for engaging in walking. We examined the use of walking maps for increasing physical activity (PA) among low-income residents of public housing sites in Boston, Massachusetts. PA facilities, local businesses, and destinations in a walkable half-mile radius of the housing community were identified and plotted on maps by using geographic information systems technology. Four focus groups (n = 24) were conducted to learn how the walking maps were used by the residents and to understand map features that promoted use. Maps were used by participants to increase their PA, and use of the maps increased participants' awareness of community resources. Maps changed participants' perception of distances and were discussed as a means of fostering a sense of community. Use of the maps also increased participants' awareness of neighborhood incivilities. Barriers to map use were difficulty in interpreting the maps and lack of access to the maps. Walking maps that display PA opportunities and resources may be useful in increasing walking among residents of public housing sites.

Symplectic approach to calculation of magnetic field line trajectories in physical space with realistic magnetic geometry in divertor tokamaks

DOE Office of Scientific and Technical Information (OSTI.GOV)

Punjabi, Alkesh; Ali, Halima

A new approach to integration of magnetic field lines in divertor tokamaks is proposed. In this approach, an analytic equilibrium generating function (EGF) is constructed in natural canonical coordinates ({psi},{theta}) from experimental data from a Grad-Shafranov equilibrium solver for a tokamak. {psi} is the toroidal magnetic flux and {theta} is the poloidal angle. Natural canonical coordinates ({psi},{theta},{phi}) can be transformed to physical position (R,Z,{phi}) using a canonical transformation. (R,Z,{phi}) are cylindrical coordinates. Another canonical transformation is used to construct a symplectic map for integration of magnetic field lines. Trajectories of field lines calculated from this symplectic map in natural canonicalmore » coordinates can be transformed to trajectories in real physical space. Unlike in magnetic coordinates [O. Kerwin, A. Punjabi, and H. Ali, Phys. Plasmas 15, 072504 (2008)], the symplectic map in natural canonical coordinates can integrate trajectories across the separatrix surface, and at the same time, give trajectories in physical space. Unlike symplectic maps in physical coordinates (x,y) or (R,Z), the continuous analog of a symplectic map in natural canonical coordinates does not distort trajectories in toroidal planes intervening the discrete map. This approach is applied to the DIII-D tokamak [J. L. Luxon and L. E. Davis, Fusion Technol. 8, 441 (1985)]. The EGF for the DIII-D gives quite an accurate representation of equilibrium magnetic surfaces close to the separatrix surface. This new approach is applied to demonstrate the sensitivity of stochastic broadening using a set of perturbations that generically approximate the size of the field errors and statistical topological noise expected in a poloidally diverted tokamak. Plans for future application of this approach are discussed.« less

Symplectic approach to calculation of magnetic field line trajectories in physical space with realistic magnetic geometry in divertor tokamaks

NASA Astrophysics Data System (ADS)

Punjabi, Alkesh; Ali, Halima

2008-12-01

A new approach to integration of magnetic field lines in divertor tokamaks is proposed. In this approach, an analytic equilibrium generating function (EGF) is constructed in natural canonical coordinates (ψ,θ) from experimental data from a Grad-Shafranov equilibrium solver for a tokamak. ψ is the toroidal magnetic flux and θ is the poloidal angle. Natural canonical coordinates (ψ,θ,φ) can be transformed to physical position (R,Z,φ) using a canonical transformation. (R,Z,φ) are cylindrical coordinates. Another canonical transformation is used to construct a symplectic map for integration of magnetic field lines. Trajectories of field lines calculated from this symplectic map in natural canonical coordinates can be transformed to trajectories in real physical space. Unlike in magnetic coordinates [O. Kerwin, A. Punjabi, and H. Ali, Phys. Plasmas 15, 072504 (2008)], the symplectic map in natural canonical coordinates can integrate trajectories across the separatrix surface, and at the same time, give trajectories in physical space. Unlike symplectic maps in physical coordinates (x,y) or (R,Z), the continuous analog of a symplectic map in natural canonical coordinates does not distort trajectories in toroidal planes intervening the discrete map. This approach is applied to the DIII-D tokamak [J. L. Luxon and L. E. Davis, Fusion Technol. 8, 441 (1985)]. The EGF for the DIII-D gives quite an accurate representation of equilibrium magnetic surfaces close to the separatrix surface. This new approach is applied to demonstrate the sensitivity of stochastic broadening using a set of perturbations that generically approximate the size of the field errors and statistical topological noise expected in a poloidally diverted tokamak. Plans for future application of this approach are discussed.

Preliminary soil-slip susceptibility maps, southwestern California

USGS Publications Warehouse

Morton, Douglas M.; Alvarez, Rachel M.; Campbell, Russell H.; Digital preparation by Bovard, Kelly R.; Brown, D.T.; Corriea, K.M.; Lesser, J.N.

2003-01-01

This group of maps shows relative susceptibility of hill slopes to the initiation sites of rainfall-triggered soil slip-debris flows in southwestern California. As such, the maps offer a partial answer to one part of the three parts necessary to predict the soil-slip/debris-flow process. A complete prediction of the process would include assessments of “where”, “when”, and “how big”. These maps empirically show part of the “where” of prediction (i.e., relative susceptibility to sites of initiation of the soil slips) but do not attempt to show the extent of run out of the resultant debris flows. Some information pertinent to “when” the process might begin is developed. “When” is determined mostly by dynamic factors such as rainfall rate and duration, for which local variations are not amenable to long-term prediction. “When” information is not provided on the maps but is described later in this narrative. The prediction of “how big” is addressed indirectly by restricting the maps to a single type of landslide process—soil slip-debris flows. The susceptibility maps were created through an iterative process from two kinds of information. First, locations of sites of past soil slips were obtained from inventory maps of past events. Aerial photographs, taken during six rainy seasons that produced abundant soil slips, were used as the basis for soil slip-debris flow inventory. Second, digital elevation models (DEM) of the areas that were inventoried were used to analyze the spatial characteristics of soil slip locations. These data were supplemented by observations made on the ground. Certain physical attributes of the locations of the soil-slip debris flows were found to be important and others were not. The most important attribute was the mapped bedrock formation at the site of initiation of the soil slip. However, because the soil slips occur in surficial materials overlying the bedrocks units, the bedrock formation can only serve as a surrogate for the susceptibility of the overlying surficial materials. The maps of susceptibility were created from those physical attributes learned to be important from the inventories. The multiple inventories allow a model to be created from one set of inventory data and evaluated with others. The resultant maps of relative susceptibility represent the best estimate generated from available inventory and DEM data. Slope and aspect values used in the susceptibility analysis were 10-meter DEM cells at a scale of 1:24,000. For most of the area 10-meter DEMs were available; for those quadrangles that have only 30-meter DEMs, the 30-meter DEMS were resampled to 10-meters to maintain resolution of 10-meter cells. Geologic unit values used in the susceptibility analysis were five-meter cells. For convenience, the soil slip susceptibility values are assembled on 1:100,000-scale bases. Any area of the 1:100,000-scale maps can be transferred to 1:24,000-scale base without any loss of accuracy. Figure 32 is an example of part of a 1:100,000-scale susceptibility map transferred back to a 1:24,000-scale quadrangle.

Data Imputation in Epistatic MAPs by Network-Guided Matrix Completion

PubMed Central

Žitnik, Marinka; Zupan, Blaž

2015-01-01

Abstract Epistatic miniarray profile (E-MAP) is a popular large-scale genetic interaction discovery platform. E-MAPs benefit from quantitative output, which makes it possible to detect subtle interactions with greater precision. However, due to the limits of biotechnology, E-MAP studies fail to measure genetic interactions for up to 40% of gene pairs in an assay. Missing measurements can be recovered by computational techniques for data imputation, in this way completing the interaction profiles and enabling downstream analysis algorithms that could otherwise be sensitive to missing data values. We introduce a new interaction data imputation method called network-guided matrix completion (NG-MC). The core part of NG-MC is low-rank probabilistic matrix completion that incorporates prior knowledge presented as a collection of gene networks. NG-MC assumes that interactions are transitive, such that latent gene interaction profiles inferred by NG-MC depend on the profiles of their direct neighbors in gene networks. As the NG-MC inference algorithm progresses, it propagates latent interaction profiles through each of the networks and updates gene network weights toward improved prediction. In a study with four different E-MAP data assays and considered protein–protein interaction and gene ontology similarity networks, NG-MC significantly surpassed existing alternative techniques. Inclusion of information from gene networks also allowed NG-MC to predict interactions for genes that were not included in original E-MAP assays, a task that could not be considered by current imputation approaches. PMID:25658751

Integrating hydrodynamic models and COSMO-SkyMed derived products for flood damage assessment

NASA Astrophysics Data System (ADS)

Giuffra, Flavio; Boni, Giorgio; Pulvirenti, Luca; Pierdicca, Nazzareno; Rudari, Roberto; Fiorini, Mattia

2015-04-01

Floods are the most frequent weather disasters in the world and probably the most costly in terms of social and economic losses. They may have a strong impact on infrastructures and health because the range of possible damages includes casualties, loss of housing and destruction of crops. Presently, the most common approach for remotely sensing floods is the use of synthetic aperture radar (SAR) images. Key features of SAR data for inundation mapping are the synoptic view, the capability to operate even in cloudy conditions and during both day and night time and the sensitivity of the microwave radiation to water. The launch of a new generation of instruments, such as TerraSAR-X and COSMO-SkyMed (CSK) allows producing near real time flood maps having a spatial resolution in the order of 1-5 m. Moreover, the present (CSK) and upcoming (Sentinel-1) constellations permit the acquisition of radar data characterized by a short revisit time (in the order of some hours for CSK), so that the production of frequent inundation maps can be envisaged. Nonetheless, gaps might be present in the SAR-derived flood maps because of the limited area imaged by SAR; moreover, the detection of floodwater may be complicated by the presence of very dense vegetation or urban settlements. Hence the need to complement SAR-derived flood maps with the outputs of physical models. Physical models allow delivering to end users very useful information for a complete flood damage assessment, such as data on water depths and flow directions, which cannot be directly derived from satellite remote sensing images. In addition, the flood extent predictions of hydraulic models can be compared to SAR-derived inundation maps to calibrate the models, or to fill the aforementioned gaps that can be present in the SAR-derived maps. Finally, physical models enable the construction of risk scenarios useful for emergency managers to take their decisions and for programming additional SAR acquisitions in order to observe the temporal evolution of the event (e.g. the water receding). In this paper, the first outcomes of a study aiming at combining COSMO-SkyMed derived flood maps with hydrodynamic models are presented. The study is carried out within the framework of the EO-based CHange detection for Operational Flood Management (ECHO-FM) project, funded by the Italian Space Agency (ASI) as part of the research activities agreed in the cooperation between ASI and the Japan Aerospace Exploration Agency (JAXA). The flood that hit the region of Shkodër, in Albania, on January 2010, is considered as test case. The work focuses on the utility of a dense temporal series of SAR data, such as that available through CSK for this case study, used in combination with a hydrodynamic model to monitor over a long time (in the order of 3 weeks) the natural drainage of the Shkodër floodplain. It is shown that by matching the outputs of the model to SAR observations, the hydrodynamic inconsistencies in CSK estimates can be corrected.

Preduction of Vehicle Mobility on Large-Scale Soft-Soil Terrain Maps Using Physics-Based Simulation

DTIC Science & Technology

2016-08-02

PREDICTION OF VEHICLE MOBILITY ON LARGE-SCALE SOFT- SOIL TERRAIN MAPS USING PHYSICS-BASED SIMULATION Tamer M. Wasfy, Paramsothy Jayakumar, Dave...NRMM • Objectives • Soft Soils • Review of Physics-Based Soil Models • MBD/DEM Modeling Formulation – Joint & Contact Constraints – DEM Cohesive... Soil Model • Cone Penetrometer Experiment • Vehicle- Soil Model • Vehicle Mobility DOE Procedure • Simulation Results • Concluding Remarks 2UNCLASSIFIED

Entanglement dynamics in a Kerr spacetime

NASA Astrophysics Data System (ADS)

Menezes, G.

2018-04-01

We consider the entanglement dynamics between two-level atoms in a rotating black hole background. In our model the two-atom system is envisaged as an open system coupled with a massless scalar field prepared in one of the physical vacuum states of interest. We employ the quantum master equation in the Born-Markov approximation in order to describe the time evolution of the atomic subsystem. We investigate two different states of motion for the atoms, namely static atoms and also stationary atoms with zero angular momentum. The purpose of this work is to expound the impact on the creation of entanglement coming from the combined action of the different physical processes underlying the Hawking effect and the Unruh-Starobinskii effect. We demonstrate that, in the scenario of rotating black holes, the degree of quantum entanglement is significantly modified due to the phenomenon of superradiance in comparison with the analogous cases in a Schwarzschild spacetime. In the perspective of a zero angular momentum observer (ZAMO), one is allowed to probe entanglement dynamics inside the ergosphere, since static observers cannot exist within such a region. On the other hand, the presence of superradiant modes could be a source for violation of complete positivity. This is verified when the quantum field is prepared in the Frolov-Thorne vacuum state. In this exceptional situation, we raise the possibility that the loss of complete positivity is due to the breakdown of the Markovian approximation, which means that any arbitrary physically admissible initial state of the two atoms would not be capable to hold, with time evolution, its interpretation as a physical state inasmuch as negative probabilities are generated by the dynamical map.

Quantitative DNA fiber mapping

DOEpatents

Gray, Joe W.; Weier, Heinz-Ulrich G.

1998-01-01

The present invention relates generally to the DNA mapping and sequencing technologies. In particular, the present invention provides enhanced methods and compositions for the physical mapping and positional cloning of genomic DNA. The present invention also provides a useful analytical technique to directly map cloned DNA sequences onto individual stretched DNA molecules.

Human cDNA mapping using fluorescence in situ hybridization. Final progress report, April 1, 1994--July 31, 1997

DOE Office of Scientific and Technical Information (OSTI.GOV)

Korenberg, J.R.

The ultimate goal of this research is to generate and apply novel technologies to speed completion and integration of the human genome map and sequence with biomedical problems. To do this, techniques were developed and genome-wide resources generated. This includes a genome-wide Mapped and Integrated BAC/PAC Resource that has been used for gene finding, map completion and anchoring, breakpoint definition and sequencing. In the last period of the grant, the Human Mapped BAC/PAC Resource was also applied to determine regions of human variation and to develop a novel paradigm of primate evolution through to humans. Further, in order to moremore » rapidly evaluate animal models of human disease, a BAC Map of the mouse was generated in collaboration with the MTI Genome Center, Dr. Bruce Birren.« less

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

NASA Astrophysics Data System (ADS)

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 evaluation and low perceived value of the learning task, respectively. The discussion presents implications for practice and research, such as introducing motivation scaffolds to support appreciation of task value, and addressing major differences between the design of this study and similar published studies, respectively. This work provides contributions in that it tested the effect of Computer-Assisted Argumentation Mapping on the critical thinking skills of twelfth-grade students within the context of evaluating physics arguments, a previously unexplored age group and domain.

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

PubMed

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. © 2015 The Authors The Plant Journal © 2015 John Wiley & Sons Ltd.

Virtual optical network mapping and core allocation in elastic optical networks using multi-core fibers

NASA Astrophysics Data System (ADS)

Xuan, Hejun; Wang, Yuping; Xu, Zhanqi; Hao, Shanshan; Wang, Xiaoli

2017-11-01

Virtualization technology can greatly improve the efficiency of the networks by allowing the virtual optical networks to share the resources of the physical networks. However, it will face some challenges, such as finding the efficient strategies for virtual nodes mapping, virtual links mapping and spectrum assignment. It is even more complex and challenging when the physical elastic optical networks using multi-core fibers. To tackle these challenges, we establish a constrained optimization model to determine the optimal schemes of optical network mapping, core allocation and spectrum assignment. To solve the model efficiently, tailor-made encoding scheme, crossover and mutation operators are designed. Based on these, an efficient genetic algorithm is proposed to obtain the optimal schemes of the virtual nodes mapping, virtual links mapping, core allocation. The simulation experiments are conducted on three widely used networks, and the experimental results show the effectiveness of the proposed model and algorithm.

2D and 3D virtual interactive laboratories of physics on Unity platform

NASA Astrophysics Data System (ADS)

González, J. D.; Escobar, J. H.; Sánchez, H.; De la Hoz, J.; Beltrán, J. R.

2017-12-01

Using the cross-platform game engine Unity, we develop virtual laboratories for PC, consoles, mobile devices and website as an innovative tool to study physics. There is extensive uptake of ICT in the teaching of science and its impact on the learning, and considering the limited availability of laboratories for physics teaching and the difficulties this causes in the learning of school students, we design the virtual laboratories to enhance studentâĂŹs knowledge of concepts in physics. To achieve this goal, we use Unity due to provide support bump mapping, reflection mapping, parallax mapping, dynamics shadows using shadows maps, full-screen post-processing effects and render-to-texture. Unity can use the best variant for the current video hardware and, if none are compatible, to use an alternative shader that may sacrifice features for performance. The control over delivery to mobile devices, web browsers, consoles and desktops is the main reason Unity is the best option among the same kind cross-platform. Supported platforms include Android, Apple TV, Linux, iOS, Nintendo 3DS line, macOS, PlayStation 4, Windows Phone 8, Wii but also an asset server and Nvidia’s PhysX physics engine which is the most relevant tool on Unity for our PhysLab.

Mapping of the 3q27 region involved in Dup(3q) syndrome

DOE Office of Scientific and Technical Information (OSTI.GOV)

Rizzu, P.; Baldini, A.; Overhauser, J.

1994-09-01

The duplication 3q syndrome is characterized by partial trisomy of a segment of the long arm of chromosome 3. We have previously found that 3q26.3-3q27 is the minimal region of trisomy overlap. This critical region (CR) is delimited by two patient chromosome breakpoints, approximately 10 cM apart. In order to identify the gene(s) responsible for the Dup(3q) phenotype, we are generating a physical map of the region and identifying expressed sequences. First, we have generated a cytological map using two- and three-color fluorescence in situ hybridization on metaphase and interphase chromosomes. Results allowed us to determine the centromere-telomere orientation, ordermore » and relative distances of six cosmid clones mapped to the CR. Because some of the markers used are part of the consensus chromosome 3 map, our data were easily integrated with existing mapping information. Subsequently, we have included in the map YAC clones positive for polymorphic PCR markers identified by CEPH-Genethon, as well as newly isolated YACs. We have assigned them to the critical region 7 of the Genethon polymorphic markers and linked them to three YAC contigs. Currently our map includes two of the five genes known to map in this region. Interestingly, we found that these two functionally related genes (kininogen and histidin-rich glycoprotein) map to the same 1 Mb genomic fragment. As the physical map is being constructed we are searching for expressed sequences. Positive cDNAs have been found and their characterization is in progress. In conclusion, we will present an integrated map of 3q27 that includes genetic, physical and cytological information as well as gene annotation. As Dup(3q) syndrome is likely to be a contiguous gene syndrome, such a map will be necessary for our understanding of this multiple congenital anomaly.« less

Integrated consensus genetic and physical maps of flax (Linum usitatissimum L.).

PubMed

Cloutier, Sylvie; Ragupathy, Raja; Miranda, Evelyn; Radovanovic, Natasa; Reimer, Elsa; Walichnowski, Andrzej; Ward, Kerry; Rowland, Gordon; Duguid, Scott; Banik, Mitali

2012-12-01

Three linkage maps of flax (Linum usitatissimum L.) were constructed from populations CDC Bethune/Macbeth, E1747/Viking and SP2047/UGG5-5 containing between 385 and 469 mapped markers each. The first consensus map of flax was constructed incorporating 770 markers based on 371 shared markers including 114 that were shared by all three populations and 257 shared between any two populations. The 15 linkage group map corresponds to the haploid number of chromosomes of this species. The marker order of the consensus map was largely collinear in all three individual maps but a few local inversions and marker rearrangements spanning short intervals were observed. Segregation distortion was present in all linkage groups which contained 1-52 markers displaying non-Mendelian segregation. The total length of the consensus genetic map is 1,551 cM with a mean marker density of 2.0 cM. A total of 670 markers were anchored to 204 of the 416 fingerprinted contigs of the physical map corresponding to ~274 Mb or 74 % of the estimated flax genome size of 370 Mb. This high resolution consensus map will be a resource for comparative genomics, genome organization, evolution studies and anchoring of the whole genome shotgun sequence.

Quantum channels irreducibly covariant with respect to the finite group generated by the Weyl operators

NASA Astrophysics Data System (ADS)

Siudzińska, Katarzyna; Chruściński, Dariusz

2018-03-01

In matrix algebras, we introduce a class of linear maps that are irreducibly covariant with respect to the finite group generated by the Weyl operators. In particular, we analyze the irreducibly covariant quantum channels, that is, the completely positive and trace-preserving linear maps. Interestingly, imposing additional symmetries leads to the so-called generalized Pauli channels, which were recently considered in the context of the non-Markovian quantum evolution. Finally, we provide examples of irreducibly covariant positive but not necessarily completely positive maps.

Teaching Physics Novices at University: A Case for Stronger Scaffolding

ERIC Educational Resources Information Center

Lindstrom, Christine; Sharma, Manjula D.

2011-01-01

In 2006 a new type of tutorial, called Map Meeting, was successfully trialled with novice first year physics students at the University of Sydney, Australia. Subsequently, in first semester 2007 a large-scale experiment was carried out with 262 students who were allocated either to the strongly scaffolding Map Meetings or to the less scaffolding…

Missouri Assessment Program (MAP), Spring 2000: High School Health/Physical Education, Released Items, Grade 9.

ERIC Educational Resources Information Center

Missouri State Dept. of Elementary and Secondary Education, Jefferson City.

This document presents 10 released items from the Health/Physical Education Missouri Assessment Program (MAP) test given in the spring of 2000 to ninth graders. Items from the test sessions include: selected-response (multiple choice), constructed-response, and a performance event. The selected-response items consist of individual questions…

IP Infrastructure Geolocation

DTIC Science & Technology

2015-03-01

unlimited 13. ABSTRACT (maximum 200 words) Physical network maps are important to critical infrastructure defense and planning. Current state-of...the-art network infrastructure geolocation relies on Domain Name System (DNS) inferences. However, not only is using the DNS relatively inaccurate for...INTENTIONALLY LEFT BLANK iv ABSTRACT Physical network maps are important to critical infrastructure defense and planning. Cur- rent state-of-the-art

The Making of the 1:3M Geological Map Series of Mercury: Status and Updates

NASA Astrophysics Data System (ADS)

Galluzzi, V.; Guzzetta, L.; Mancinelli, P.; Giacomini, L.; Lewang, A. M.; Malliband, C.; Mosca, A.; Pegg, D.; Wright, J.; Ferranti, L.; Hiesinger, H.; Massironi, M.; Pauselli, C.; Rothery, D. A.; Palumbo, P.

2018-05-01

A complete global series of 1:3M-scale maps of Mercury is being prepared in support to the ESA/JAXA BepiColombo mission. Currently, 35% of Mercury has been mapped and 55% of the planet will be covered soon by the maps in progress.

Using Ecological Asset Mapping to Investigate Pre-Service Teachers' Cultural Assets

ERIC Educational Resources Information Center

Borrero, Noah; Yeh, Christine

2016-01-01

We examined the impact of a pedagogical strategy, ecological asset mapping, on 19 pre-service teachers' self-exploration, development of respect for others, and critical examination of social injustice. Data were analyzed from participants' ecological asset maps and essays describing the experience of completing and sharing the maps. The analysis…

Release of the World Digital Magnetic Anomaly Map version 2 (WDMAM v2) scheduled

NASA Astrophysics Data System (ADS)

Dyment, Jérôme; Lesur, Vincent; Choi, Yujin; Hamoudi, Mohamed; Thébault, Erwan; Catalan, Manuel

2015-04-01

The World Digital Magnetic Anomaly Map is an international initiative carried out under the auspices of the International Association of Geomagnetism and Aeronomy (IAGA) and the Commission for the Geological Map of the World (CGMW). A first version of the map has been published and distributed eight years ago (WDMAM v1; Korhonen et al., 2007). After a call for an improved second version of the map in 2011, the slow process of data compilation, map preparation, evaluation and finalization is near completion, and the WDMAM v2 will be released at the International Union of Geophysics and Geodesy (IUGG) meeting to be held in Prag in June-July 2015. In this presentation we display several shortcomings of the WDMAM v1, both on continental and oceanic areas, that are hopefully alleviated in the WDMAM v2, and discuss the process leading to the new map. We reiterate a long-standing call for aeromagnetic and marine magnetic data contribution, and explore future directions to pursue the effort toward a more complete, higher resolution magnetic anomaly map of the World.

Assessment of volcanic hazards, vulnerability, risk and uncertainty (Invited)

NASA Astrophysics Data System (ADS)

Sparks, R. S.

2009-12-01

A volcanic hazard is any phenomenon that threatens communities . These hazards include volcanic events like pyroclastic flows, explosions, ash fall and lavas, and secondary effects such as lahars and landslides. Volcanic hazards are described by the physical characteristics of the phenomena, by the assessment of the areas that they are likely to affect and by the magnitude-dependent return period of events. Volcanic hazard maps are generated by mapping past volcanic events and by modelling the hazardous processes. Both these methods have their strengths and limitations and a robust map should use both approaches in combination. Past records, studied through stratigraphy, the distribution of deposits and age dating, are typically incomplete and may be biased. Very significant volcanic hazards, such as surge clouds and volcanic blasts, are not well-preserved in the geological record for example. Models of volcanic processes are very useful to help identify hazardous areas that do not have any geological evidence. They are, however, limited by simplifications and incomplete understanding of the physics. Many practical volcanic hazards mapping tools are also very empirical. Hazards maps are typically abstracted into hazards zones maps, which are some times called threat or risk maps. Their aim is to identify areas at high levels of threat and the boundaries between zones may take account of other factors such as roads, escape routes during evacuation, infrastructure. These boundaries may change with time due to new knowledge on the hazards or changes in volcanic activity levels. Alternatively they may remain static but implications of the zones may change as volcanic activity changes. Zone maps are used for planning purposes and for management of volcanic crises. Volcanic hazards maps are depictions of the likelihood of future volcanic phenomena affecting places and people. Volcanic phenomena are naturally variable, often complex and not fully understood. There are many sources of uncertainty in forecasting the areas that volcanic activity will effect and the severity of the effects. Uncertainties arise from: natural variability, inadequate data, biased data, incomplete data, lack of understanding of the processes, limitations to predictive models, ambiguity, and unknown unknowns. The description of volcanic hazards is thus necessarily probabilistic and requires assessment of the attendant uncertainties. Several issues arise from the probabilistic nature of volcanic hazards and the intrinsic uncertainties. Although zonation maps require well-defined boundaries for administrative pragmatism, such boundaries cannot divide areas that are completely safe from those that are unsafe. Levels of danger or safety need to be defined to decide on and justify boundaries through the concepts of vulnerability and risk. More data, better observations, improved models may reduce uncertainties, but can increase uncertainties and may lead to re-appraisal of zone boundaries. Probabilities inferred by statistical techniques are hard to communicate. Expert elicitation is an emerging methodology for risk assessment and uncertainty evaluation. The method has been applied at one major volcanic crisis (Soufrière Hills Volcano, Montserrat), and is being applied in planning for volcanic crises at Vesuvius.

Association schemes perspective of microbubble cluster in ultrasonic fields.

PubMed

Behnia, S; Yahyavi, M; Habibpourbisafar, R

2018-06-01

Dynamics of a cluster of chaotic oscillators on a network are studied using coupled maps. By introducing the association schemes, we obtain coupling strength in the adjacency matrices form, which satisfies Markov matrices property. We remark that in general, the stability region of the cluster of oscillators at the synchronization state is characterized by Lyapunov exponent which can be defined based on the N-coupled map. As a detailed physical example, dynamics of microbubble cluster in an ultrasonic field are studied using coupled maps. Microbubble cluster dynamics have an indicative highly active nonlinear phenomenon, were not easy to be explained. In this paper, a cluster of microbubbles with a thin elastic shell based on the modified Keller-Herring equation in an ultrasonic field is demonstrated in the framework of the globally coupled map. On the other hand, a relation between the microbubble elements is replaced by a relation between the vertices. Based on this method, the stability region of microbubbles pulsations at complete synchronization state has been obtained analytically. In this way, distances between microbubbles as coupling strength play the crucial role. In the stability region, we thus observe that the problem of study of dynamics of N-microbubble oscillators reduce to that of a single microbubble. Therefore, the important parameters of the isolated microbubble such as applied pressure, driving frequency and the initial radius have effective behavior on the synchronization state. Copyright © 2018 Elsevier B.V. All rights reserved.

Mapping the solar wind HI outflow velocity in the inner heliosphere by coronagraphic ultraviolet and visible-light observations

NASA Astrophysics Data System (ADS)

Dolei, S.; Susino, R.; Sasso, C.; Bemporad, A.; Andretta, V.; Spadaro, D.; Ventura, R.; Antonucci, E.; Abbo, L.; Da Deppo, V.; Fineschi, S.; Focardi, M.; Frassetto, F.; Giordano, S.; Landini, F.; Naletto, G.; Nicolini, G.; Nicolosi, P.; Pancrazzi, M.; Romoli, M.; Telloni, D.

2018-05-01

We investigated the capability of mapping the solar wind outflow velocity of neutral hydrogen atoms by using synergistic visible-light and ultraviolet observations. We used polarised brightness images acquired by the LASCO/SOHO and Mk3/MLSO coronagraphs, and synoptic Lyα line observations of the UVCS/SOHO spectrometer to obtain daily maps of solar wind H I outflow velocity between 1.5 and 4.0 R⊙ on the SOHO plane of the sky during a complete solar rotation (from 1997 June 1 to 1997 June 28). The 28-days data sequence allows us to construct coronal off-limb Carrington maps of the resulting velocities at different heliocentric distances to investigate the space and time evolution of the outflowing solar plasma. In addition, we performed a parameter space exploration in order to study the dependence of the derived outflow velocities on the physical quantities characterising the Lyα emitting process in the corona. Our results are important in anticipation of the future science with the Metis instrument, selected to be part of the Solar Orbiter scientific payload. It was conceived to carry out near-sun coronagraphy, performing for the first time simultaneous imaging in polarised visible-light and ultraviolet H I Lyα line, so providing an unprecedented view of the solar wind acceleration region in the inner corona. The movie (see Sect. 4.2) is available at https://www.aanda.org

First-generation physical map of the Culicoides variipennis (Diptera: Ceratopogonidae) genome.

PubMed

Nunamaker, R A; Brown, S E; McHolland, L E; Tabachnick, W J; Knudson, D L

1999-11-01

Recombinant cosmids labeled with biotin-11-dUTP or digoxigenin by nick translation were used as in situ hybridization probes to metaphase chromosomes of Culicoides variipennis (Coquillett). Paired fluorescent signals were detected on each arm of sister chromatids and were ordered along the 3 chromosomes. Thirty-three unique probes were mapped to the 3 chromosomes of C. variipennis (2n = 6): 7 to chromosome 1, 20 to chromosome 2, and 6 to chromosome 3. This work represents the first stage in generating a physical map of the genome of C. variipennis.

Construction of a high-density high-resolution genetic map and its integration with BAC-based physical map in channel catfish

USDA-ARS?s Scientific Manuscript database

Construction of genetic linkage map is essential for genetic and genomic studies. Recent advances in sequencing and genotyping technologies made it possible to generate high-density and high-resolution genetic linkage maps, especially for the organisms lacking extensive genomic resources. In the pre...

A web-based intervention for health professionals and patients to decrease cardiovascular risk attributable to physical inactivity: development process.

PubMed

Sassen, Barbara; Kok, Gerjo; Mesters, Ilse; Crutzen, Rik; Cremers, Anita; Vanhees, Luc

2012-12-14

Patients with cardiovascular risk factors can reduce their risk of cardiovascular disease by increasing their physical activity and their physical fitness. According to the guidelines for cardiovascular risk management, health professionals should encourage their patients to engage in physical activity. In this paper, we provide insight regarding the systematic development of a Web-based intervention for both health professionals and patients with cardiovascular risk factors using the development method Intervention Mapping. The different steps of Intervention Mapping are described to open up the "black box" of Web-based intervention development and to support future Web-based intervention development. The development of the Professional and Patient Intention and Behavior Intervention (PIB2 intervention) was initiated with a needs assessment for both health professionals (ie, physiotherapy and nursing) and their patients. We formulated performance and change objectives and, subsequently, theory- and evidence-based intervention methods and strategies were selected that were thought to affect the intention and behavior of health professionals and patients. The rationale of the intervention was based on different behavioral change methods that allowed us to describe the scope and sequence of the intervention and produced the Web-based intervention components. The Web-based intervention consisted of 5 modules, including individualized messages and self-completion forms, and charts and tables. The systematic and planned development of the PIB2 intervention resulted in an Internet-delivered behavior change intervention. The intervention was not developed as a substitute for face-to-face contact between professionals and patients, but as an application to complement and optimize health services. The focus of the Web-based intervention was to extend professional behavior of health care professionals, as well as to improve the risk-reduction behavior of patients with cardiovascular risk factors. The Intervention Mapping protocol provided a systematic method for developing the intervention and each intervention design choice was carefully thought-out and justified. Although it was not a rapid or an easy method for developing an intervention, the protocol guided and directed the development process. The application of evidence-based behavior change methods used in our intervention offers insight regarding how an intervention may change intention and health behavior. The Web-based intervention appeared feasible and was implemented. Further research will test the effectiveness of the PIB2 intervention. Dutch Trial Register, Trial ID: ECP-92.

Curriculum Mapping in Academic Libraries

ERIC Educational Resources Information Center

Buchanan, Heidi; Webb, Katy Kavanagh; Houk, Amy Harris; Tingelstad, Catherine

2015-01-01

Librarians at four different academic institutions concurrently completed curriculum mapping projects using varying methods to analyze their information literacy instruction. Curriculum mapping is a process for systematically evaluating components of an instructional program for cohesiveness, proper sequencing, and goal achievement. There is a…

imVisIR - a new tool for high resolution soil characterisation

NASA Astrophysics Data System (ADS)

Steffens, Markus; Buddenbaum, Henning

2014-05-01

The physical and chemical heterogeneities of soils are the source of a vast functional diversity of soil properties in a multitude of spatial domains. But many studies do not consider the spatial variability of soil types, diagnostic horizons and properties. These lateral and vertical heterogeneities of soils or soil horizons are mostly neglected due to the limitations in the available soil data and missing techniques to gather the information. We present an imaging technique that enables the spatially accurate, high resolution assessment (63×63 µm2 per pixel) of complete soil profiles consisting of mineral and organic horizons. We used a stainless steel box (100×100×300 mm3) to sample various soil types and a hyperspectral camera to record the bidirectional reflectance of the large undisturbed soil samples in the visible and near infrared (Vis-NIR) part of the electromagnetic spectrum (400-1000 nm in 160 spectral bands). Various statistical, geostatistical and image processing tools were used to 1) assess the spatial variability of the soil profile as a whole; 2) classify diagnostic horizons; 3) extrapolate elemental concentrations of small sampling areas to the complete image and calculate high resolution chemometric maps of up to five elements (C, N, Al, Fe, Mn); and 4) derive maps of the chemical composition of soil organic matter. Imaging Vis-NIR (imVisIR) has the potential to significantly improve soil classification, assessment of elemental budgets and balances and the understanding of soil forming processes and mechanisms. It will help to identify areas of interest for techniques working on smaller scales and enable the upscaling and referencing of this information to the complete pedon.

A theory of photometric stereo for a class of diffuse non-Lambertian surfaces

NASA Technical Reports Server (NTRS)

Tagare, Hemant D.; Defigueiredo, Rui J. P.

1991-01-01

A theory of photometric stereo is proposed for a large class of non-Lambertian reflectance maps. The authors review the different reflectance maps proposed in the literature for modeling reflection from real-world surfaces. From this, they obtain a mathematical class of reflectance maps to which the maps belong. They show that three lights can be sufficient for a unique inversion of the photometric stereo equation for the entire class of reflectance maps. They also obtain a constraint on the positions of light sources for obtaining this solution. They investigate the sufficiency of three light sources to estimate the surface normal and the illuminant strength. The issue of completeness of reconstruction is addressed. They shown that if k lights are sufficient for a unique inversion, 2k lights are necessary for a complete inversion.

Global Boreal Forest Mapping with JERS-1: North America

NASA Technical Reports Server (NTRS)

Williams, Cynthia L.; McDonald, Kyle; Chapman, Bruce

2000-01-01

Collaborative effort is underway to map boreal forests worldwide using L-band, single polarization Synthetic Aperture Radar (SAR) imagery from the Japanese Earth Resources (JERS-1) satellite. Final products of the North American Boreal Forest Mapping Project will include two continental scale radar mosaics and supplementary multitemporal mosaics for Alaska, central Canada, and eastern Canada. For selected sites, we are also producing local scale (100 km x 100 km) and regional scale maps (1000 km x 1000 km). As with the nearly completed Amazon component of the Global Rain Forest Mapping project, SAR imagery, radar image mosaics and SAR-derived texture image products will be available to the scientific community on the World Wide Web. Image acquisition for this project has been completed and processing and image interpretation is underway at the Alaska SAR Facility.

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

NASA Astrophysics Data System (ADS)

Smith, Robyn; Rogoszinski, Zeeve; Sheppard, Kyle; Taylor, Corbin; Wilkins, Ashlee; Vogel, Stuart; Rolston, Steve; Hammer, Donna; Gezari, Suvi; Williams, Jimmy

2017-01-01

Graduate Resources for Advancing Diversity with Maryland's Astronomy and Physics (GRAD-MAP) builds connections with mid-Atlantic HBCUs, Minority-Serving Institutions (MSIs), and community colleges using seminars, forums, and workshops to foster a diverse community: undergraduates prepared to succeed in graduate school, inclusion-minded graduate student mentors, and faculty versed in the experiences of students at MSIs. In its fourth year, GRAD-MAP remains a graduate-student-powered initiative with a four-pronged approach: 1) Fall Collaborative Seminars, 2) Winter Workshop, 3) Spring Symposium, and 4) Summer Scholars Program. This coherent programming allows GRAD-MAP to do more than just increase the number of minority students or simply shuffle around students who already are, or would be, active in research. GRAD-MAP is committed to identifying students who are underserved or overlooked by the traditional academic pipeline. Our goal is not only to get them on the path to be successful undergraduate researchers and eventual graduate applicants, but also to make substantial, sustainable efforts toward a more inclusive climate in physics and astronomy. We will describe the key elements of our program, highlight successes and lessons learned, and describe formal evaluation currently underway with the intent that GRAD-MAP could serve as a model for other universities committed to diversity and inclusion.

Situational Analysis of Physical Therapist Clinical Instructors' Facilitation of Students' Emerging Embodiment of Movement in Practice.

PubMed

Covington, Kyle; Barcinas, Susan J

2017-06-01

Physical therapists improve the functional ability of patients after injury and disease. A unique component of their practice is the ability to use the movement of their own bodies to effect change in their patients. This ability has been recognized as a distinctive attribute of expert physical therapists. The purpose of this qualitative situational analysis study was to examine how physical therapist clinical instructors perceive and facilitate their students' emerging integration of movement in practice. Data collection and analysis were guided by a theoretical framework for understanding "professional ways of being." Data were analyzed using coding and mapping strategies consistent with situational analysis techniques. The study included 5 physical therapist clinical instructors and their respective 5 physical therapist students. Data were collected during beginning, midterm, and final weeks of the students' clinical internships using participant interviews, observation, and document analysis. Coded data were summarized using situational analysis mapping strategies, resulting in 11 maps. These maps were further analyzed and reduced to 5 thematic behaviors enacted by a clinical instructor as he or she helps facilitate students' use of movement in practice. These behaviors are adapt, prepare, enhance, connect , and develop . The limited number of participants and the relative homogeneity of the student sample may have limited the diversity of data collected. The 5 behaviors are useful when considered as a trajectory of development. To our knowledge, this study marks the first description of how physical therapist clinical instructors develop students' use of movement in practice and how to enact behaviors important in students' continued professional development. The findings are important for clinical instructors and academic programs considering how best to prepare students to use movement and develop their skills early in practice. © 2017 American Physical Therapy Association

The National Council for Geographic Education Competency-Based Geography Test. Secondary Level. Form I. Parts I, II, and III.

ERIC Educational Resources Information Center

Kurfman, Dana G.; And Others

A 3-part test measures the geography knowledge, skills, and understanding of secondary level students. Part 1, map skills and location, contains 20 questions involving the use of three maps: an imaginary sketch map, a contour map, and a political map of the world. Part 2 consists of 20 questions covering physical geography. Students analyze…

Formative use of select-and-fill-in concept maps in online instruction: Implications for students of different learning styles

NASA Astrophysics Data System (ADS)

Kaminski, Charles William

The purpose of this research was to investigate the formative use of Select and Fill-In (SAFI) maps in online instruction and the cognitive, metacognitive, and affective responses of students to their use. In particular, the implications of their use with students of different learning styles was considered. The research question investigated in this qualitative study was: How do students of different learning styles respond to online instruction in which SAFI maps are utilized? This question was explored by using an emergent, collective case study. Each case consisted of community college students who shared a dominant learning style and were enrolled in an online course in environmental studies. Cases in the study were determined using Kolb's Learning Style Inventory (LSI). Seven forms of data were collected during the study. During the first phase of data collection, dominant learning style and background information on student experience with concept mapping and online instruction was determined. In the second phase of data collection, participants completed SAFI maps and quiz items that corresponded to the content of the maps. Achievement data on the map activities and quiz and student responses to a post-SAFI survey and questionnaire were recorded to identify learner cognitive, metacognitive, and affective responses to the tasks. Upon completion of data collection, cases were constructed and compared across learning styles. Cases are presented using the trends, across participants sharing the same dominant learning style, in achievement, behaviors and attitudes as seen in the evidence present in the data. Triangulation of multiple data sources increased reliability and validity, through cross-case analyses, and produced a thick description of the relationship between the cases for each learning style. Evidence suggesting a cognitive response to the SAFI tasks was inconsistent across cases. However, learners with an affinity towards reflective learning activities demonstrated more positive metacognitive and affective responses to the SAFI tasks. This suggests that the contemplation and consideration of relationships expressed in the map requires learners, while completing the SAFI task, to compare their existing cognitive structure with an accepted structure and to reflect on the differences and similarities that may exist. Subsequently, the value of formative online SAFI map use for learners lies within the cognitive process of completing the tasks, not in the construction of an abstract cognitive structure reflecting an accepted structure and organization of concepts suggested by a completed map.

Physical Properties of the MER and Beagle II Landing Sites on Mars

NASA Astrophysics Data System (ADS)

Jakosky, B. M.; Pelkey, S. M.; Mellon, M. T.; Putzig, N.; Martinez-Alonso, S.; Murphy, N.; Hynek, B.

2003-12-01

The ESA Beagle II and the NASA Mars Exploration Rover spacecraft are scheduled to land on the martian surface in December 2003 and January 2004, respectively. Mission operations and success depends on the physical properties of the surfaces on which they land. Surface structural characteristics such as the abundances of loose, unconsolidated fine material, of fine material that has been cemented into a duricrust, and of rocks affect the ability to safely land and to successfully sample and traverse the surface. Also, physical properties affect surface and atmospheric temperatures, which affect lander and rover functionality. We are in the process of analyzing surface temperature information for these sites, derived from MGS TES and Odyssey THEMIS daytime and nighttime measurements. Our approach is to: (i) remap thermal inertia using TES data at ~3-km resolution, to obtain the most complete coverage possible; (ii) interpret physical properties from TES coverage in conjunction with other remote-sensing data sets; (iii) map infrared brightness using daytime and nighttime THEMIS data at 100-m resolution, and do qualitative analysis of physical properties and processes; and (iv) derive thermal inertia from THEMIS nighttime data in conjunction with daytime albedo measurements derived from TES, THEMIS, and MOC observations. In addition, we will use measured temperatures and derived thermal inertia to predict surface temperatures for the periods of the missions.

An integrated molecular cytogenetic map of Cucumis sativus L. chromosome 2.

PubMed

Han, Yonghua; Zhang, Zhonghua; Huang, Sanwen; Jin, Weiwei

2011-01-27

Integration of molecular, genetic and cytological maps is still a challenge for most plant species. Recent progress in molecular and cytogenetic studies created a basis for developing integrated maps in cucumber (Cucumis sativus L.). In this study, eleven fosmid clones and three plasmids containing 45S rDNA, the centromeric satellite repeat Type III and the pericentriomeric repeat CsRP1 sequences respectively were hybridized to cucumber metaphase chromosomes to assign their cytological location on chromosome 2. Moreover, an integrated molecular cytogenetic map of cucumber chromosomes 2 was constructed by fluorescence in situ hybridization (FISH) mapping of 11 fosmid clones together with the cucumber centromere-specific Type III sequence on meiotic pachytene chromosomes. The cytogenetic map was fully integrated with genetic linkage map since each fosmid clone was anchored by a genetically mapped simple sequence repeat marker (SSR). The relationship between the genetic and physical distances along chromosome was analyzed. Recombination was not evenly distributed along the physical length of chromosome 2. Suppression of recombination was found in centromeric and pericentromeric regions. Our results also indicated that the molecular markers composing the linkage map for chromosome 2 provided excellent coverage of the chromosome.

Long-range restriction map of human chromosome 22q11-22q12 between the lambda immunoglobulin locus and the Ewing sarcoma breakpoint

DOE Office of Scientific and Technical Information (OSTI.GOV)

McDermid, H.E.; Budarf, M.L.; Emanuel, B.S.

1993-11-01

A long-range restriction map of the region between the immunoglobulin lambda locus and the Ewing sarcoma breakpoint has been constructed using the rare-cutting enzymes NotI, NruI, AscI, and BsiWI. The map spans approximately 11,000 kb and represents about one-fifth of the long arm of chromosome 22. Thirty-nine markers, including seven NotI junction clones as well as numerous genes and anonymous sequences, were mapped to the region with a somatic cell hybrid panel. These probes were then used to produce the map. The seven NotI junction clones each identified a possible CpG island. The breakpoints of the RAJ5 hybrid and themore » Ewing sarcoma t(11;22) were also localized in the resulting map. This physical map will be useful in studying chromosomal rearrangements in the region, as well as providing the details to examine the fidelity of the YAC and cosmid contigs currently under construction. Comparisons of this physical map to genetic and radiation hybrid maps are discussed. 52 refs., 7 figs., 3 tabs.« less

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

ERIC Educational Resources Information Center

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,…

Activities in planetary geology for the physical and earth sciences

NASA Technical Reports Server (NTRS)

Dalli, R.; Greeley, R.

1982-01-01

A users guide for teaching activities in planetary geology, and for physical and earth sciences is presented. The following topics are discussed: cratering; aeolian processes; planetary atmospheres, in particular the Coriolis Effect and storm systems; photogeologic mapping of other planets, Moon provinces and stratigraphy, planets in stereo, land form mapping of Moon, Mercury and Mars, and geologic features of Mars.

Prediction of AL and Dst Indices from ACE Measurements Using Hybrid Physics/Black-Box Techniques

NASA Astrophysics Data System (ADS)

Spencer, E.; Rao, A.; Horton, W.; Mays, L.

2008-12-01

ACE measurements of the solar wind velocity, IMF and proton density is used to drive a hybrid Physics/Black- Box model of the nightside magnetosphere. The core physics is contained in a low order nonlinear dynamical model of the nightside magnetosphere called WINDMI. The model is augmented by wavelet based nonlinear mappings between the solar wind quantities and the input into the physics model, followed by further wavelet based mappings of the model output field aligned currents onto the ground based magnetometer measurements of the AL index and Dst index. The black box mappings are introduced at the input stage to account for uncertainties in the way the solar wind quantities are transported from the ACE spacecraft at L1 to the magnetopause. Similar mappings are introduced at the output stage to account for a spatially and temporally varying westward auroral electrojet geometry. The parameters of the model are tuned using a genetic algorithm, and trained using the large geomagnetic storm dataset of October 3-7 2000. It's predictive performance is then evaluated on subsequent storm datasets, in particular the April 15-24 2002 storm. This work is supported by grant NSF 7020201

The development and characterisation of a bacterial artificial chromosome library for Fragaria vesca

PubMed Central

Bonet, Julio; Girona, Elena Lopez; Sargent, Daniel J; Muñoz-Torres, Monica C; Monfort, Amparo; Abbott, Albert G; Arús, Pere; Simpson, David W; Davik, Jahn

2009-01-01

Background The cultivated strawberry Fragaria ×ananassa is one of the most economically-important soft-fruit species. Few structural genomic resources have been reported for Fragaria and there exists an urgent need for the development of physical mapping resources for the genus. The first stage in the development of a physical map for Fragaria is the construction and characterisation of a high molecular weight bacterial artificial chromosome (BAC) library. Methods A BAC library, consisting of 18,432 clones was constructed from Fragaria vesca f. semperflorens accession 'Ali Baba'. BAC DNA from individual library clones was pooled to create a PCR-based screening assay for the library, whereby individual clones could be identified with just 34 PCR reactions. These pools were used to screen the BAC library and anchor individual clones to the diploid Fragaria reference map (FV×FN). Findings Clones from the BAC library developed contained an average insert size of 85 kb, representing over seven genome equivalents. The pools and superpools developed were used to identify a set of BAC clones containing 70 molecular markers previously mapped to the diploid Fragaria FV×FN reference map. The number of positive colonies identified for each marker suggests the library represents between 4× and 10× coverage of the diploid Fragaria genome, which is in accordance with the estimate of library coverage based on average insert size. Conclusion This BAC library will be used for the construction of a physical map for F. vesca and the superpools will permit physical anchoring of molecular markers using PCR. PMID:19772672

Image Maps in the World-Wide Web: The Uses and Limitations.

ERIC Educational Resources Information Center

Cochenour, John J.; And Others

A study of nine different image maps from World Wide Web home pages was conducted to evaluate their effectiveness in information display and access, relative to visual, navigational, and practical characteristics. Nine independent viewers completed 20-question surveys on the image maps, in which they evaluated the characteristics of the maps on a…

National Park Service vegetation inventory program: Mississippi National River and Recreation Area, Minnesota

USGS Publications Warehouse

Hop, Kevin D.; Drake, Jim; Strassman, Andrew C.; Hoy, Erin E.; Jakusz, Joseph; Menard, Shannon; Dieck, Jennifer

2015-01-01

The Mississippi National River and Recreation Area (MISS) vegetation mapping project is an initiative of the National Park Service (NPS) Vegetation Inventory Program (VIP) to classify and map vegetation types of MISS. (Note: “MISS” is also referred to as “park” throughout this report.) The goals of the project are to adequately describe and map vegetation types of the park and to provide the NPS Natural Resource Inventory and Monitoring (I&M) Program, resource managers, and biological researchers with useful baseline vegetation information.The MISS vegetation mapping project was officially started in spring 2012, with a scoping meeting wherein partners discussed project objectives, goals, and methods. Major collaborators at this meeting included staff from the NPS MISS, the NPS Great Lakes Network (GLKN), NatureServe, and the USGS Upper Midwest Environmental Sciences Center. The Minnesota Department of Natural Resources (DNR) was also in attendance. Common to all NPS VIP projects, the three main components of the MISS vegetation mapping project are as follows: (1) vegetation classification, (2) vegetation mapping, and (3) map accuracy assessment (AA). In this report, each of these fundamental components is discussed in detail.With the completion of the MISS vegetation mapping project, all nine park units within the NPS GLKN have received vegetation classification and mapping products from the NPS and USGS vegetation programs. Voyageurs National Park and Isle Royale National Park were completed during 1996–2001 (as program pilot projects) and another six park units were completed during 2004–11, including the Apostle Islands National Lakeshore, Grand Portage National Monument, Indiana Dunes National Lakeshore, Pictured Rocks National Lakeshore, Saint Croix National Scenic Riverway, and Sleeping Bear Dunes National Lakeshore.

A Fluorescence in Situ Hybridization System for Karyotyping Soybean

PubMed Central

Findley, Seth D.; Cannon, Steven; Varala, Kranthi; Du, Jianchang; Ma, Jianxin; Hudson, Matthew E.; Birchler, James A.; Stacey, Gary

2010-01-01

The development of a universal soybean (Glycine max [L.] Merr.) cytogenetic map that associates classical genetic linkage groups, molecular linkage groups, and a sequence-based physical map with the karyotype has been impeded due to the soybean chromosomes themselves, which are small and morphologically homogeneous. To overcome this obstacle, we screened soybean repetitive DNA to develop a cocktail of fluorescent in situ hybridization (FISH) probes that could differentially label mitotic chromosomes in root tip preparations. We used genetically anchored BAC clones both to identify individual chromosomes in metaphase spreads and to complete a FISH-based karyotyping cocktail that permitted simultaneous identification of all 20 chromosome pairs. We applied these karyotyping tools to wild soybean, G. soja Sieb. and Zucc., which represents a large gene pool of potentially agronomically valuable traits. These studies led to the identification and characterization of a reciprocal chromosome translocation between chromosomes 11 and 13 in two accessions of wild soybean. The data confirm that this translocation is widespread in G. soja accessions and likely accounts for the semi-sterility found in some G. soja by G. max crosses. PMID:20421607

Elastic Model Transitions: a Hybrid Approach Utilizing Quadratic Inequality Constrained Least Squares (LSQI) and Direct Shape Mapping (DSM)

NASA Technical Reports Server (NTRS)

Jurenko, Robert J.; Bush, T. Jason; Ottander, John A.

2014-01-01

A method for transitioning linear time invariant (LTI) models in time varying simulation is proposed that utilizes both quadratically constrained least squares (LSQI) and Direct Shape Mapping (DSM) algorithms to determine physical displacements. This approach is applicable to the simulation of the elastic behavior of launch vehicles and other structures that utilize multiple LTI finite element model (FEM) derived mode sets that are propagated throughout time. The time invariant nature of the elastic data for discrete segments of the launch vehicle trajectory presents a problem of how to properly transition between models while preserving motion across the transition. In addition, energy may vary between flex models when using a truncated mode set. The LSQI-DSM algorithm can accommodate significant changes in energy between FEM models and carries elastic motion across FEM model transitions. Compared with previous approaches, the LSQI-DSM algorithm shows improvements ranging from a significant reduction to a complete removal of transients across FEM model transitions as well as maintaining elastic motion from the prior state.

Central US earthquake catalog for hazard maps of Memphis, Tennessee

USGS Publications Warehouse

Wheeler, R.L.; Mueller, C.S.

2001-01-01

An updated version of the catalog that was used for the current national probabilistic seismic-hazard maps would suffice for production of large-scale hazard maps of the Memphis urban area. Deaggregation maps provide guidance as to the area that a catalog for calculating Memphis hazard should cover. For the future, the Nuttli and local network catalogs could be examined for earthquakes not presently included in the catalog. Additional work on aftershock removal might reduce hazard uncertainty. Graphs of decadal and annual earthquake rates suggest completeness at and above magnitude 3 for the last three or four decades. Any additional work on completeness should consider the effects of rapid, local population changes during the Nation's westward expansion. ?? 2001 Elsevier Science B.V. All rights reserved.

Subnormalized states and trace-nonincreasing maps

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cappellini, Valerio; Sommers, Hans-Juergen; Zyczkowski, Karol

2007-05-15

We investigate the set of completely positive, trace-nonincreasing linear maps acting on the set M{sub N} of mixed quantum states of size N. Extremal point of this set of maps are characterized and its volume with respect to the Hilbert-Schmidt (HS) (Euclidean) measure is computed explicitly for an arbitrary N. The spectra of partially reduced rescaled dynamical matrices associated with trace-nonincreasing completely positive maps belong to the N cube inscribed in the set of subnormalized states of size N. As a by-product we derive the measure in M{sub N} induced by partial trace of mixed quantum states distributed uniformly withmore » respect to the HS measure in M{sub N{sup 2}}.« less

MAP3K1-related gonadal dysgenesis: Six new cases and review of the literature.

PubMed

Granados, Andrea; Alaniz, Veronica I; Mohnach, Lauren; Barseghyan, Hayk; Vilain, Eric; Ostrer, Harry; Quint, Elisabeth H; Chen, Ming; Keegan, Catherine E

2017-06-01

Investigation of disorders of sex development (DSD) has resulted in the discovery of multiple sex-determining genes. MAP3K1 encodes a signal transduction regulator in the sex determination pathway and is emerging as one of the more common genes responsible for 46,XY DSD presenting as complete or partial gonadal dysgenesis. Clinical assessment, endocrine evaluation, and genetic analysis were performed in six individuals from four unrelated families with 46,XY DSD. All six individuals were found to have likely pathogenic MAP3K1 variants. Three of these individuals presented with complete gonadal dysgenesis, characterized by bilateral streak gonads with typical internal and external female genitalia, while the other three presented with partial gonadal dysgenesis, characterized by incomplete testicular development, resulting in clitoral hypertrophy with otherwise typical female external genitalia. Testing for MAP3K1 variants should be considered in patients with 46,XY complete or partial gonadal dysgenesis, particularly in families with multiple members affected with 46,XY DSD. Identification of a MAP3K1 variant should prompt an evaluation for DSD in female siblings of the proband. © 2017 Wiley Periodicals, Inc.

Integrating physical and genetic maps: from genomes to interaction networks

PubMed Central

Beyer, Andreas; Bandyopadhyay, Sourav; Ideker, Trey

2009-01-01

Physical and genetic mapping data have become as important to network biology as they once were to the Human Genome Project. Integrating physical and genetic networks currently faces several challenges: increasing the coverage of each type of network; establishing methods to assemble individual interaction measurements into contiguous pathway models; and annotating these pathways with detailed functional information. A particular challenge involves reconciling the wide variety of interaction types that are currently available. For this purpose, recent studies have sought to classify genetic and physical interactions along several complementary dimensions, such as ordered versus unordered, alleviating versus aggravating, and first versus second degree. PMID:17703239

Magician Simulator. A Realistic Simulator for Heterogenous Teams of Autonomous Robots

DTIC Science & Technology

2011-01-18

IMU, and LIDAR systems for identifying and tracking mobile OOI at long range (>20m), providing early warnings and allowing neutralization from a... LIDAR and Computer Vision template-based feature tracking approaches. Mapping was solved through Multi-Agent particle-filter based Simultaneous...Locali- zation and Mapping ( SLAM ). Our system contains two maps, a physical map and an influence map (location of hostile OOI, explored and unexplored

Optical mapping and its potential for large-scale sequencing projects.

PubMed

Aston, C; Mishra, B; Schwartz, D C

1999-07-01

Physical mapping has been rediscovered as an important component of large-scale sequencing projects. Restriction maps provide landmark sequences at defined intervals, and high-resolution restriction maps can be assembled from ensembles of single molecules by optical means. Such optical maps can be constructed from both large-insert clones and genomic DNA, and are used as a scaffold for accurately aligning sequence contigs generated by shotgun sequencing.

One map policy (OMP) implementation strategy to accelerate mapping of regional spatial planing (RTRW) in Indonesia

NASA Astrophysics Data System (ADS)

Hasyim, Fuad; Subagio, Habib; Darmawan, Mulyanto

2016-06-01

A preparation of spatial planning documents require basic geospatial information and thematic accuracies. Recently these issues become important because spatial planning maps are impartial attachment of the regional act draft on spatial planning (PERDA). The needs of geospatial information in the preparation of spatial planning maps preparation can be divided into two major groups: (i). basic geospatial information (IGD), consist of of Indonesia Topographic maps (RBI), coastal and marine environmental maps (LPI), and geodetic control network and (ii). Thematic Geospatial Information (IGT). Currently, mostly local goverment in Indonesia have not finished their regulation draft on spatial planning due to some constrain including technical aspect. Some constrain in mapping of spatial planning are as follows: the availability of large scale ofbasic geospatial information, the availability of mapping guidelines, and human resources. Ideal conditions to be achieved for spatial planning maps are: (i) the availability of updated geospatial information in accordance with the scale needed for spatial planning maps, (ii) the guideline of mapping for spatial planning to support local government in completion their PERDA, and (iii) capacity building of local goverment human resources to completed spatial planning maps. The OMP strategies formulated to achieve these conditions are: (i) accelerating of IGD at scale of 1:50,000, 1: 25,000 and 1: 5,000, (ii) to accelerate mapping and integration of Thematic Geospatial Information (IGT) through stocktaking availability and mapping guidelines, (iii) the development of mapping guidelines and dissemination of spatial utilization and (iv) training of human resource on mapping technology.

ASCA Temperature Maps for Merging and Relaxed Clusters and Physics of the Cluster Gas

NASA Technical Reports Server (NTRS)

Markevitch, M.; Sarazin, C.; Nevalainen, J.; Vikhlinin, A.; Forman, W.

1999-01-01

ASCA temperature maps for several galaxy clusters undergoing strong mergers will be presented. From these maps, it is possible to estimate velocities of the colliding subclusters. I will discuss several interesting implications of these estimates for the physics of the cluster gas and the shape of the gravitational potential. I will also present temperature maps and profiles for several relaxed clusters selected for X-ray mass determination, and present the mass values derived without the assumption of isothermality. The accurate mass-temperature and luminosity-temperature relations will be discussed. This talk will review how AXAF will revolutionize X-ray astronomy through its radically better imaging and spectroscopic resolution. Examples from many fields of astrophysics will be given.

Children's perceptions of their home and neighborhood environments, and their association with objectively measured physical activity: a qualitative and quantitative study.

PubMed

Hume, C; Salmon, J; Ball, K

2005-02-01

Environmental factors may have an important influence on children's physical activity, yet children's perspectives of their home and neighborhood environments have not been widely assessed. The aim of this study was to investigate children's perceptions of their environments, and to examine associations between these perceptions and objectively measured physical activity. The sample consisted of 147, 10-year-old Australian children, who drew maps of their home and neighborhood environments. A subsample of children photographed places and things in these environments that were important to them. The maps were analyzed for themes, and for the frequency with which particular objects and locations appeared. Physical activity was objectively measured using accelerometers. Six themes emerged from the qualitative analysis of the maps and photographs: the family home; opportunities for physical activity and sedentary pursuits; food items and locations; green space and outside areas; the school and opportunities for social interaction. Of the 11 variables established from these themes, one home and two neighborhood factors were associated with children's physical activity. These findings contribute to a broader understanding of children's perceptions of their environment, and highlight the potential importance of the home and neighborhood environments for promoting physical activity behavior.

Features of the organization of bread wheat chromosome 5BS based on physical mapping.

PubMed

Salina, Elena A; Nesterov, Mikhail A; Frenkel, Zeev; Kiseleva, Antonina A; Timonova, Ekaterina M; Magni, Federica; Vrána, Jan; Šafář, Jan; Šimková, Hana; Doležel, Jaroslav; Korol, Abraham; Sergeeva, Ekaterina M

2018-02-09

The IWGSC strategy for construction of the reference sequence of the bread wheat genome is based on first obtaining physical maps of the individual chromosomes. Our aim is to develop and use the physical map for analysis of the organization of the short arm of wheat chromosome 5B (5BS) which bears a number of agronomically important genes, including genes conferring resistance to fungal diseases. A physical map of the 5BS arm (290 Mbp) was constructed using restriction fingerprinting and LTC software for contig assembly of 43,776 BAC clones. The resulting physical map covered ~ 99% of the 5BS chromosome arm (111 scaffolds, N50 = 3.078 Mb). SSR, ISBP and zipper markers were employed for anchoring the BAC clones, and from these 722 novel markers were developed based on previously obtained data from partial sequencing of 5BS. The markers were mapped using a set of Chinese Spring (CS) deletion lines, and F2 and RICL populations from a cross of CS and CS-5B dicoccoides. Three approaches have been used for anchoring BAC contigs on the 5BS chromosome, including clone-by-clone screening of BACs, GenomeZipper analysis, and comparison of BAC-fingerprints with in silico fingerprinting of 5B pseudomolecules of T. dicoccoides. These approaches allowed us to reach a high level of BAC contig anchoring: 96% of 5BS BAC contigs were located on 5BS. An interesting pattern was revealed in the distribution of contigs along the chromosome. Short contigs (200-999 kb) containing markers for the regions interrupted by tandem repeats, were mainly localized to the 5BS subtelomeric block; whereas the distribution of larger 1000-3500 kb contigs along the chromosome better correlated with the distribution of the regions syntenic to rice, Brachypodium, and sorghum, as detected by the Zipper approach. The high fingerprinting quality, LTC software and large number of BAC clones selected by the informative markers in screening of the 43,776 clones allowed us to significantly increase the BAC scaffold length when compared with the published physical maps for other wheat chromosomes. The genetic and bioinformatics resources developed in this study provide new possibilities for exploring chromosome organization and for breeding applications.

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

PubMed Central

2011-01-01

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 elements was low. The SSRs identified from BES will be valuable in saturating existing linkage maps and for anchoring physical and genetic maps. The physical map and paired-end reads from BAC clones will also serve as scaffolds to build and validate the whole genome shotgun assembly. PMID:21554714

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

PubMed

Ragupathy, Raja; Rathinavelu, Rajkumar; Cloutier, Sylvie

2011-05-09

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. 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. 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 elements was low. The SSRs identified from BES will be valuable in saturating existing linkage maps and for anchoring physical and genetic maps. The physical map and paired-end reads from BAC clones will also serve as scaffolds to build and validate the whole genome shotgun assembly.

Physical Maps for Genome Analysis of Serotype A and D Strains of the Fungal Pathogen Cryptococcus neoformans

PubMed Central

Schein, Jacqueline E.; Tangen, Kristin L.; Chiu, Readman; Shin, Heesun; Lengeler, Klaus B.; MacDonald, William Kim; Bosdet, Ian; Heitman, Joseph; Jones, Steven J.M.; Marra, Marco A.; Kronstad, James W.

2002-01-01

The basidiomycete fungus Cryptococcus neoformans is an important opportunistic pathogen of humans that poses a significant threat to immunocompromised individuals. Isolates of C. neoformans are classified into serotypes (A, B, C, D, and AD) based on antigenic differences in the polysaccharide capsule that surrounds the fungal cells. Genomic and EST sequencing projects are underway for the serotype D strain JEC21 and the serotype A strain H99. As part of a genomics program for C. neoformans, we have constructed fingerprinted bacterial artificial chromosome (BAC) clone physical maps for strains H99 and JEC21 to support the genomic sequencing efforts and to provide an initial comparison of the two genomes. The BAC clones represented an estimated 10-fold redundant coverage of the genomes of each serotype and allowed the assembly of 20 contigs each for H99 and JEC21. We found that the genomes of the two strains are sufficiently distinct to prevent coassembly of the two maps when combined fingerprint data are used to construct contigs. Hybridization experiments placed 82 markers on the JEC21 map and 102 markers on the H99 map, enabling contigs to be linked with specific chromosomes identified by electrophoretic karyotyping. These markers revealed both extensive similarity in gene order (conservation of synteny) between JEC21 and H99 as well as examples of chromosomal rearrangements including inversions and translocations. Sequencing reads were generated from the ends of the BAC clones to allow correlation of genomic shotgun sequence data with physical map contigs. The BAC maps therefore represent a valuable resource for the generation, assembly, and finishing of the genomic sequence of both JEC21 and H99. The physical maps also serve as a link between map-based and sequence-based data, providing a powerful resource for continued genomic studies. [This paper is dedicated to the memory of Michael Smith, Founding Director of the Biotechnology Laboratory and the BC Cancer Agency Genome Sciences Centre. Supplemental material is available online at http://www.genome.org.] PMID:12213782

Ultrafast and scalable cone-beam CT reconstruction using MapReduce in a cloud computing environment.

PubMed

Meng, Bowen; Pratx, Guillem; Xing, Lei

2011-12-01

Four-dimensional CT (4DCT) and cone beam CT (CBCT) are widely used in radiation therapy for accurate tumor target definition and localization. However, high-resolution and dynamic image reconstruction is computationally demanding because of the large amount of data processed. Efficient use of these imaging techniques in the clinic requires high-performance computing. The purpose of this work is to develop a novel ultrafast, scalable and reliable image reconstruction technique for 4D CBCT∕CT using a parallel computing framework called MapReduce. We show the utility of MapReduce for solving large-scale medical physics problems in a cloud computing environment. In this work, we accelerated the Feldcamp-Davis-Kress (FDK) algorithm by porting it to Hadoop, an open-source MapReduce implementation. Gated phases from a 4DCT scans were reconstructed independently. Following the MapReduce formalism, Map functions were used to filter and backproject subsets of projections, and Reduce function to aggregate those partial backprojection into the whole volume. MapReduce automatically parallelized the reconstruction process on a large cluster of computer nodes. As a validation, reconstruction of a digital phantom and an acquired CatPhan 600 phantom was performed on a commercial cloud computing environment using the proposed 4D CBCT∕CT reconstruction algorithm. Speedup of reconstruction time is found to be roughly linear with the number of nodes employed. For instance, greater than 10 times speedup was achieved using 200 nodes for all cases, compared to the same code executed on a single machine. Without modifying the code, faster reconstruction is readily achievable by allocating more nodes in the cloud computing environment. Root mean square error between the images obtained using MapReduce and a single-threaded reference implementation was on the order of 10(-7). Our study also proved that cloud computing with MapReduce is fault tolerant: the reconstruction completed successfully with identical results even when half of the nodes were manually terminated in the middle of the process. An ultrafast, reliable and scalable 4D CBCT∕CT reconstruction method was developed using the MapReduce framework. Unlike other parallel computing approaches, the parallelization and speedup required little modification of the original reconstruction code. MapReduce provides an efficient and fault tolerant means of solving large-scale computing problems in a cloud computing environment.

Ultrafast and scalable cone-beam CT reconstruction using MapReduce in a cloud computing environment

PubMed Central

Meng, Bowen; Pratx, Guillem; Xing, Lei

2011-01-01

Purpose: Four-dimensional CT (4DCT) and cone beam CT (CBCT) are widely used in radiation therapy for accurate tumor target definition and localization. However, high-resolution and dynamic image reconstruction is computationally demanding because of the large amount of data processed. Efficient use of these imaging techniques in the clinic requires high-performance computing. The purpose of this work is to develop a novel ultrafast, scalable and reliable image reconstruction technique for 4D CBCT/CT using a parallel computing framework called MapReduce. We show the utility of MapReduce for solving large-scale medical physics problems in a cloud computing environment. Methods: In this work, we accelerated the Feldcamp–Davis–Kress (FDK) algorithm by porting it to Hadoop, an open-source MapReduce implementation. Gated phases from a 4DCT scans were reconstructed independently. Following the MapReduce formalism, Map functions were used to filter and backproject subsets of projections, and Reduce function to aggregate those partial backprojection into the whole volume. MapReduce automatically parallelized the reconstruction process on a large cluster of computer nodes. As a validation, reconstruction of a digital phantom and an acquired CatPhan 600 phantom was performed on a commercial cloud computing environment using the proposed 4D CBCT/CT reconstruction algorithm. Results: Speedup of reconstruction time is found to be roughly linear with the number of nodes employed. For instance, greater than 10 times speedup was achieved using 200 nodes for all cases, compared to the same code executed on a single machine. Without modifying the code, faster reconstruction is readily achievable by allocating more nodes in the cloud computing environment. Root mean square error between the images obtained using MapReduce and a single-threaded reference implementation was on the order of 10−7. Our study also proved that cloud computing with MapReduce is fault tolerant: the reconstruction completed successfully with identical results even when half of the nodes were manually terminated in the middle of the process. Conclusions: An ultrafast, reliable and scalable 4D CBCT/CT reconstruction method was developed using the MapReduce framework. Unlike other parallel computing approaches, the parallelization and speedup required little modification of the original reconstruction code. MapReduce provides an efficient and fault tolerant means of solving large-scale computing problems in a cloud computing environment. PMID:22149842

Direction of Translation and Size of Bacteriophage φX174 Cistrons

PubMed Central

Benbow, Robert M.; Mayol, Robert F.; Picchi, Joanna C.; Sinsheimer, Robert L.

1972-01-01

Translation of the bacteriophage φX174 genome follows cistron order D-E-F-G-H-A-B-C. To establish this, the position of a nonsense mutation on the genetic map was compared with the physical size (molecular weight) of the appropriate protein fragment generated in nonpermissive cells. Distances on the φX174 genetic map and distances on a physical map constructed from the molecular weights of φX174 proteins and protein fragments are proportional over most of the genome with the exception of the high recombination region within cistron A. Images PMID:16789133

Social Distance Evaluation in Human Parietal Cortex

PubMed Central

Yamakawa, Yoshinori; Kanai, Ryota; Matsumura, Michikazu; Naito, Eiichi

2009-01-01

Across cultures, social relationships are often thought of, described, and acted out in terms of physical space (e.g. “close friends” “high lord”). Does this cognitive mapping of social concepts arise from shared brain resources for processing social and physical relationships? Using fMRI, we found that the tasks of evaluating social compatibility and of evaluating physical distances engage a common brain substrate in the parietal cortex. The present study shows the possibility of an analytic brain mechanism to process and represent complex networks of social relationships. Given parietal cortex's known role in constructing egocentric maps of physical space, our present findings may help to explain the linguistic, psychological and behavioural links between social and physical space. PMID:19204791

Proteome-Scale Human Interactomics.

PubMed

Luck, Katja; Sheynkman, Gloria M; Zhang, Ivy; Vidal, Marc

2017-05-01

Cellular functions are mediated by complex interactome networks of physical, biochemical, and functional interactions between DNA sequences, RNA molecules, proteins, lipids, and small metabolites. A thorough understanding of cellular organization requires accurate and relatively complete models of interactome networks at proteome scale. The recent publication of four human protein-protein interaction (PPI) maps represents a technological breakthrough and an unprecedented resource for the scientific community, heralding a new era of proteome-scale human interactomics. Our knowledge gained from these and complementary studies provides fresh insights into the opportunities and challenges when analyzing systematically generated interactome data, defines a clear roadmap towards the generation of a first reference interactome, and reveals new perspectives on the organization of cellular life. Copyright © 2017 Elsevier Ltd. All rights reserved.

Ising model versus normal form game

NASA Astrophysics Data System (ADS)

Galam, Serge; Walliser, Bernard

2010-02-01

The 2-spin Ising model in statistical mechanics and the 2×2 normal form game in game theory are compared. All configurations allowed by the second are recovered by the first when the only concern is about Nash equilibria. But it holds no longer when Pareto optimum considerations are introduced as in the prisoner’s dilemma. This gap can nevertheless be filled by adding a new coupling term to the Ising model, even if that term has up to now no physical meaning. An individual complete bilinear objective function is thus found to be sufficient to reproduce all possible configurations of a 2×2 game. Using this one-to-one mapping new perspectives for future research in both fields can be envisioned.

Assessment of Scanning Tunneling Spectroscopy Modes Inspecting Electron Confinement in Surface-Confined Supramolecular Networks

PubMed Central

Krenner, Wolfgang; Kühne, Dirk; Klappenberger, Florian; Barth, Johannes V.

2013-01-01

Scanning tunneling spectroscopy (STS) enables the local, energy-resolved investigation of a samples surface density of states (DOS) by measuring the differential conductance (dI/dV) being approximately proportional to the DOS. It is popular to examine the electronic structure of elementary samples by acquiring dI/dV maps under constant current conditions. Here we demonstrate the intricacy of STS mapping of samples exhibiting a strong corrugation originating from electronic density and local work function changes. The confinement of the Ag(111) surface state by a porous organic network is studied with maps obtained under constant-current (CC) as well as open-feedback-loop (OFL) conditions. We show how the CC maps deviate markedly from the physically more meaningful OFL maps. By applying a renormalization procedure to the OFL data we can mimic the spurious effects of the CC mode and thereby rationalize the physical effects evoking the artefacts in the CC maps. PMID:23503526

Approximate reversibility in the context of entropy gain, information gain, and complete positivity

NASA Astrophysics Data System (ADS)

Buscemi, Francesco; Das, Siddhartha; Wilde, Mark M.

2016-06-01

There are several inequalities in physics which limit how well we can process physical systems to achieve some intended goal, including the second law of thermodynamics, entropy bounds in quantum information theory, and the uncertainty principle of quantum mechanics. Recent results provide physically meaningful enhancements of these limiting statements, determining how well one can attempt to reverse an irreversible process. In this paper, we apply and extend these results to give strong enhancements to several entropy inequalities, having to do with entropy gain, information gain, entropic disturbance, and complete positivity of open quantum systems dynamics. Our first result is a remainder term for the entropy gain of a quantum channel. This result implies that a small increase in entropy under the action of a subunital channel is a witness to the fact that the channel's adjoint can be used as a recovery map to undo the action of the original channel. We apply this result to pure-loss, quantum-limited amplifier, and phase-insensitive quantum Gaussian channels, showing how a quantum-limited amplifier can serve as a recovery from a pure-loss channel and vice versa. Our second result regards the information gain of a quantum measurement, both without and with quantum side information. We find here that a small information gain implies that it is possible to undo the action of the original measurement if it is efficient. The result also has operational ramifications for the information-theoretic tasks known as measurement compression without and with quantum side information. Our third result shows that the loss of Holevo information caused by the action of a noisy channel on an input ensemble of quantum states is small if and only if the noise can be approximately corrected on average. We finally establish that the reduced dynamics of a system-environment interaction are approximately completely positive and trace preserving if and only if the data processing inequality holds approximately.

Characterising large scenario earthquakes and their influence on NDSHA maps

NASA Astrophysics Data System (ADS)

Magrin, Andrea; Peresan, Antonella; Panza, Giuliano F.

2016-04-01

The neo-deterministic approach to seismic zoning, NDSHA, relies on physically sound modelling of ground shaking from a large set of credible scenario earthquakes, which can be defined based on seismic history and seismotectonics, as well as incorporating information from a wide set of geological and geophysical data (e.g. morphostructural features and present day deformation processes identified by Earth observations). NDSHA is based on the calculation of complete synthetic seismograms; hence it does not make use of empirical attenuation models (i.e. ground motion prediction equations). From the set of synthetic seismograms, maps of seismic hazard that describe the maximum of different ground shaking parameters at the bedrock can be produced. As a rule, the NDSHA, defines the hazard as the envelope ground shaking at the site, computed from all of the defined seismic sources; accordingly, the simplest outcome of this method is a map where the maximum of a given seismic parameter is associated to each site. In this way, the standard NDSHA maps permit to account for the largest observed or credible earthquake sources identified in the region in a quite straightforward manner. This study aims to assess the influence of unavoidable uncertainties in the characterisation of large scenario earthquakes on the NDSHA estimates. The treatment of uncertainties is performed by sensitivity analyses for key modelling parameters and accounts for the uncertainty in the prediction of fault radiation and in the use of Green's function for a given medium. Results from sensitivity analyses with respect to the definition of possible seismic sources are discussed. A key parameter is the magnitude of seismic sources used in the simulation, which is based on information from earthquake catalogue, seismogenic zones and seismogenic nodes. The largest part of the existing Italian catalogues is based on macroseismic intensities, a rough estimate of the error in peak values of ground motion can therefore be the factor of two, intrinsic in MCS and other discrete scales. A simple test supports this hypothesis: an increase of 0.5 in the magnitude, i.e. one degrees in epicentral MCS, of all sources used in the national scale seismic zoning produces a doubling of the maximum ground motion. The analysis of uncertainty in ground motion maps, due to the catalogue random errors in magnitude and localization, shows a not uniform distribution of ground shaking uncertainty. The available information from catalogues of past events, that is not complete and may well not be representative of future earthquakes, can be substantially completed using independent indicators of the seismogenic potential of a given area, such as active faulting data and the seismogenic nodes.

Substantial genome synteny preservation among woody angiosperm species: comparative genomics of Chinese chestnut (Castanea mollissima) and plant reference genomes.

PubMed

Staton, Margaret; Zhebentyayeva, Tetyana; Olukolu, Bode; Fang, Guang Chen; Nelson, Dana; Carlson, John E; Abbott, Albert G

2015-10-05

Chinese chestnut (Castanea mollissima) has emerged as a model species for the Fagaceae family with extensive genomic resources including a physical map, a dense genetic map and quantitative trait loci (QTLs) for chestnut blight resistance. These resources enable comparative genomics analyses relative to model plants. We assessed the degree of conservation between the chestnut genome and other well annotated and assembled plant genomic sequences, focusing on the QTL regions of most interest to the chestnut breeding community. The integrated physical and genetic map of Chinese chestnut has been improved to now include 858 shared sequence-based markers. The utility of the integrated map has also been improved through the addition of 42,970 BAC (bacterial artificial chromosome) end sequences spanning over 26 million bases of the estimated 800 Mb chestnut genome. Synteny between chestnut and ten model plant species was conducted on a macro-syntenic scale using sequences from both individual probes and BAC end sequences across the chestnut physical map. Blocks of synteny with chestnut were found in all ten reference species, with the percent of the chestnut physical map that could be aligned ranging from 10 to 39 %. The integrated genetic and physical map was utilized to identify BACs that spanned the three previously identified QTL regions conferring blight resistance. The clones were pooled and sequenced, yielding 396 sequence scaffolds covering 13.9 Mbp. Comparative genomic analysis on a microsytenic scale, using the QTL-associated genomic sequence, identified synteny from chestnut to other plant genomes ranging from 5.4 to 12.9 % of the genome sequences aligning. On both the macro- and micro-synteny levels, the peach, grape and poplar genomes were found to be the most structurally conserved with chestnut. Interestingly, these results did not strictly follow the expectation that decreased phylogenetic distance would correspond to increased levels of genome preservation, but rather suggest the additional influence of life-history traits on preservation of synteny. The regions of synteny that were detected provide an important tool for defining and cataloging genes in the QTL regions for advancing chestnut blight resistance research.

High-density genetic map using whole-genome re-sequencing for fine mapping and candidate gene discovery for disease resistance in peanut

USDA-ARS?s Scientific Manuscript database

High-density genetic linkage maps are essential for fine mapping QTLs controlling disease resistance traits, such as early leaf spot (ELS), late leaf spot (LLS), and Tomato spotted wilt virus (TSWV). With completion of the genome sequences of two diploid ancestors of cultivated peanut, we could use ...

Immunogenicity and reactivity of novel Mycobacterium avium subsp. paratuberculosis PPE MAP1152 and conserved MAP1156 proteins with sera from experimentally and naturally infected animals

USDA-ARS?s Scientific Manuscript database

Mycobacterium avium subsp. paratuberculosis (MAP) causes Johne’s Disease (JD) in ruminants. Development of genetic tools and completion of the MAP genome sequencing project expanded opportunities for antigen discovery. In this study, we determined the seroreactivity of two proteins encoded for at th...

Chromosomal localization of actin genes in the malaria mosquito Anopheles darlingi

PubMed Central

BRIDI, L. C.; SHARAKHOVA, M. V.; SHARAKHOV, I. V.; CORDEIRO, J.; AZEVEDO, G. M.; TADEI, W. P.; RAFAEL, M. S.

2012-01-01

Physical and genetic maps have been used for chromosomal localization of genes in vectors of infectious diseases. The availability of polytene chromosomes in malaria mosquitoes provides a unique opportunity to precisely map genes of interest. We report physical mapping of two actin genes on polytene chromosomes of the major malaria vector in Amazon Anopheles darlingi. The clones with the actin genes sequences were obtained from a cDNA library constructed from RNA isolated from adult females and males of An. darlingi. Each of the two clones was mapped to a unique site on the chromosomal arm 2L in subdivisions 21A (clone pl05-A04) and 23B (clone pl17-G06). The obtained results together with previous mapping data provide a suitable basis for comparative genomics and for establishing chromosomal homologies among major malaria vectors. PMID:22804344

Development of SSR markers from Citrus clementina (Rutaceae) BAC end sequences and interspecific transferability in Citrus.

PubMed

Ollitrault, Frédérique; Terol, Javier; Pina, Jose Antonio; Navarro, Luis; Talon, Manuel; Ollitrault, Patrick

2010-11-01

Microsatellite primers were developed from bacterial artificial chromosome (BAC) end sequences of Citrus clementina and their transferability and polymorphism tested in the genus Citrus for future anchorage of physical and genetic maps and comparative interspecific genetic mapping. • Using PAGE and DNA silver staining, 79 primer pairs were selected for their transferability and polymorphism among 526 microsatellites mined in BES. A preliminary diversity study in Citrus was conducted with 18 of them, in C. reticulata, C. maxima, C. medica, C. sinensis, C. aurantium, C. paradisi, C. lemon, C. aurantifolia, and some papedas (wild citrus), using a capillary electrophoresis fragment analyzer. Intra- and interspecific polymorphism was observed, and heterozygous markers were identified for the different genotypes to be used for genetic mapping. • These results indicate the utility of the developed primers for comparative mapping studies and the integration of physical and genetic maps.

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

NASA Astrophysics Data System (ADS)

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.

Aftershock triggering by complete Coulomb stress changes

USGS Publications Warehouse

Kilb, Debi; Gomberg, J.; Bodin, P.

2002-01-01

We examine the correlation between seismicity rate change following the 1992, M7.3, Landers, California, earthquake and characteristics of the complete Coulomb failure stress (CFS) changes (??CFS(t)) that this earthquake generated. At close distances the time-varying "dynamic" portion of the stress change depends on how the rupture develops temporally and spatially and arises from radiated seismic waves and from permanent coseismic fault displacement. The permanent "static" portion (??CFS) depends only on the final coseismic displacement. ??CFS diminishes much more rapidly with distance than the transient, dynamic stress changes. A common interpretation of the strong correlation between ??CFS and aftershocks is that load changes can advance or delay failure. Stress changes may also promote failure by physically altering properties of the fault or its environs. Because it is transient, ??CFS(t) can alter the failure rate only by the latter means. We calculate both ??CFS and the maximum positive value of ??CFS(t) (peak ??CFS(t)) using a reflectivity program. Input parameters are constrained by modeling Landers displacement seismograms. We quantify the correlation between maps of seismicity rate changes and maps of modeled ??CFS and peak ??CFS(t) and find agreement for both models. However, rupture directivity, which does not affect ??CFS, creates larger peak ??CFS(t) values northwest of the main shock. This asymmetry is also observed in seismicity rate changes but not in ??CFS. This result implies that dynamic stress changes are as effective as static stress changes in triggering aftershocks and may trigger earthquakes long after the waves have passed.

Association between the Family Nutrition and Physical Activity screening tool and cardiovascular disease risk factors in 10-year old children

NASA Astrophysics Data System (ADS)

Yee, Kimbo Edward

Purpose. To examine the association of the Family Nutrition and Physical Activity (FNPA) screening tool, a behaviorally based screening tool designed to assess the obesogenic family environment and behaviors, with cardiovascular disease (CVD) risk factors in 10-year old children. Methods. One hundred nineteen children were assessed for body mass index (BMI), percent body fat (%BF), waist circumference (WC), total cholesterol, HDL-cholesterol, and resting blood pressure. A continuous CVD risk score was created using total cholesterol to HDL-cholesterol ratio (TC:HDL), mean arterial pressure (MAP), and WC. The FNPA survey was completed by parents. The associations between the FNPA score and individual CVD risk factors and the continuous CVD risk score were examined using correlation analyses. Results. Approximately 35% of the sample were overweight (19%) or obese (16%). The mean FNPA score was 24.6 +/- 2.5 (range 18 to 29). Significant correlations were found between the FNPA score and WC (r = -.35, p<.01), BMI percentile (r = -.38, p<.01), %BF (r = -.43, p<.01), and the continuous CVD risk score (r = -.22, p = .02). No significant association was found between the FNPA score and TC:HDL (r=0.10, p=0.88) or MAP (r=-0.12, p=0.20). Conclusion. Children from a high-risk, obesogenic family environment as indicated with a lower FNPA score have a higher CVD risk factor profile than children from a low-risk family environment.

Parallel computing of physical maps--a comparative study in SIMD and MIMD parallelism.

PubMed

Bhandarkar, S M; Chirravuri, S; Arnold, J

1996-01-01

Ordering clones from a genomic library into physical maps of whole chromosomes presents a central computational problem in genetics. Chromosome reconstruction via clone ordering is usually isomorphic to the NP-complete Optimal Linear Arrangement problem. Parallel SIMD and MIMD algorithms for simulated annealing based on Markov chain distribution are proposed and applied to the problem of chromosome reconstruction via clone ordering. Perturbation methods and problem-specific annealing heuristics are proposed and described. The SIMD algorithms are implemented on a 2048 processor MasPar MP-2 system which is an SIMD 2-D toroidal mesh architecture whereas the MIMD algorithms are implemented on an 8 processor Intel iPSC/860 which is an MIMD hypercube architecture. A comparative analysis of the various SIMD and MIMD algorithms is presented in which the convergence, speedup, and scalability characteristics of the various algorithms are analyzed and discussed. On a fine-grained, massively parallel SIMD architecture with a low synchronization overhead such as the MasPar MP-2, a parallel simulated annealing algorithm based on multiple periodically interacting searches performs the best. For a coarse-grained MIMD architecture with high synchronization overhead such as the Intel iPSC/860, a parallel simulated annealing algorithm based on multiple independent searches yields the best results. In either case, distribution of clonal data across multiple processors is shown to exacerbate the tendency of the parallel simulated annealing algorithm to get trapped in a local optimum.

Impact of a community-based prevention marketing intervention to promote physical activity among middle-aged women.

PubMed

Sharpe, Patricia A; Burroughs, Ericka L; Granner, Michelle L; Wilcox, Sara; Hutto, Brent E; Bryant, Carol A; Peck, Lara; Pekuri, Linda

2010-06-01

A physical activity intervention applied principles of community-based participatory research, the community-based prevention marketing framework, and social cognitive theory. A nonrandomized design included women ages 35 to 54 in the southeastern United States. Women (n = 430 preprogram, n = 217 postprogram) enrolled in a 24-week behavioral intervention and were exposed to a media campaign. They were compared to cross-sectional survey samples at pre- (n = 245) and postprogram (n = 820) from the media exposed county and a no-intervention county (n = 234 pre, n = 822 post). Women in the behavioral intervention had statistically significant positive changes on physical activity minutes, walking, park and trail use, knowledge of mapped routes and exercise partner, and negative change on exercise self-efficacy. Media exposed women had statistically significant pre- to postprogram differences on knowledge of mapped routes. No-intervention women had significant pre- to postprogram differences on physical activity minutes, walking, and knowledge of mapped routes.

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

PubMed Central

2011-01-01

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: pgml; password: 123qwe123. PMID:21955929

Combination of statistical and physically based methods to assess shallow slide susceptibility at the basin scale

NASA Astrophysics Data System (ADS)

Oliveira, Sérgio C.; Zêzere, José L.; Lajas, Sara; Melo, Raquel

2017-07-01

Approaches used to assess shallow slide susceptibility at the basin scale are conceptually different depending on the use of statistical or physically based methods. The former are based on the assumption that the same causes are more likely to produce the same effects, whereas the latter are based on the comparison between forces which tend to promote movement along the slope and the counteracting forces that are resistant to motion. Within this general framework, this work tests two hypotheses: (i) although conceptually and methodologically distinct, the statistical and deterministic methods generate similar shallow slide susceptibility results regarding the model's predictive capacity and spatial agreement; and (ii) the combination of shallow slide susceptibility maps obtained with statistical and physically based methods, for the same study area, generate a more reliable susceptibility model for shallow slide occurrence. These hypotheses were tested at a small test site (13.9 km2) located north of Lisbon (Portugal), using a statistical method (the information value method, IV) and a physically based method (the infinite slope method, IS). The landslide susceptibility maps produced with the statistical and deterministic methods were combined into a new landslide susceptibility map. The latter was based on a set of integration rules defined by the cross tabulation of the susceptibility classes of both maps and analysis of the corresponding contingency tables. The results demonstrate a higher predictive capacity of the new shallow slide susceptibility map, which combines the independent results obtained with statistical and physically based models. Moreover, the combination of the two models allowed the identification of areas where the results of the information value and the infinite slope methods are contradictory. Thus, these areas were classified as uncertain and deserve additional investigation at a more detailed scale.

The physical map of wheat chromosome 1BS provides insights into its gene space organization and evolution

PubMed Central

2013-01-01

Background The wheat genome sequence is an essential tool for advanced genomic research and improvements. The generation of a high-quality wheat genome sequence is challenging due to its complex 17 Gb polyploid genome. To overcome these difficulties, sequencing through the construction of BAC-based physical maps of individual chromosomes is employed by the wheat genomics community. Here, we present the construction of the first comprehensive physical map of chromosome 1BS, and illustrate its unique gene space organization and evolution. Results Fingerprinted BAC clones were assembled into 57 long scaffolds, anchored and ordered with 2,438 markers, covering 83% of chromosome 1BS. The BAC-based chromosome 1BS physical map and gene order of the orthologous regions of model grass species were consistent, providing strong support for the reliability of the chromosome 1BS assembly. The gene space for chromosome 1BS spans the entire length of the chromosome arm, with 76% of the genes organized in small gene islands, accompanied by a two-fold increase in gene density from the centromere to the telomere. Conclusions This study provides new evidence on common and chromosome-specific features in the organization and evolution of the wheat genome, including a non-uniform distribution of gene density along the centromere-telomere axis, abundance of non-syntenic genes, the degree of colinearity with other grass genomes and a non-uniform size expansion along the centromere-telomere axis compared with other model cereal genomes. The high-quality physical map constructed in this study provides a solid basis for the assembly of a reference sequence of chromosome 1BS and for breeding applications. PMID:24359668

Radiation hybrid map of barley chromosome 3H

USDA-ARS?s Scientific Manuscript database

Assembly of the barley genome is complicated by its large size (5.1 Gb) and proportion of repetitive elements (84%). This process is facilitated by high resolution maps for aligning BAC contigs along chromosomes. Available genetic maps; however, do not provide accurate information on the physical po...

Preferred reporting items for studies mapping onto preference-based outcome measures: The MAPS statement.

PubMed

Petrou, Stavros; Rivero-Arias, Oliver; Dakin, Helen; Longworth, Louise; Oppe, Mark; Froud, Robert; Gray, Alastair

2015-01-01

'Mapping' onto generic preference-based outcome measures is increasingly being used as a means of generating health utilities for use within health economic evaluations. Despite publication of technical guides for the conduct of mapping research, guidance for the reporting of mapping studies is currently lacking. The MAPS (MApping onto Preference-based measures reporting Standards) statement is a new checklist, which aims to promote complete and transparent reporting of mapping studies. The primary audiences for the MAPS statement are researchers reporting mapping studies, the funders of the research, and peer reviewers and editors involved in assessing mapping studies for publication. A de novo list of 29 candidate reporting items and accompanying explanations was created by a working group comprised of six health economists and one Delphi methodologist. Following a two-round, modified Delphi survey with representatives from academia, consultancy, health technology assessment agencies and the biomedical journal editorial community, a final set of 23 items deemed essential for transparent reporting, and accompanying explanations, was developed. The items are contained in a user friendly 23 item checklist. They are presented numerically and categorised within six sections, namely: (i) title and abstract; (ii) introduction; (iii) methods; (iv) results; (v) discussion; and (vi) other. The MAPS statement is best applied in conjunction with the accompanying MAPS explanation and elaboration document. It is anticipated that the MAPS statement will improve the clarity, transparency and completeness of reporting of mapping studies. To facilitate dissemination and uptake, the MAPS statement is being co-published by seven health economics and quality of life journals, and broader endorsement is encouraged. The MAPS working group plans to assess the need for an update of the reporting checklist in five years' time.

Preferred Reporting Items for Studies Mapping onto Preference-Based Outcome Measures: The MAPS Statement.

PubMed

Petrou, Stavros; Rivero-Arias, Oliver; Dakin, Helen; Longworth, Louise; Oppe, Mark; Froud, Robert; Gray, Alastair

2015-10-01

'Mapping' onto generic preference-based outcome measures is increasingly being used as a means of generating health utilities for use within health economic evaluations. Despite the publication of technical guides for the conduct of mapping research, guidance for the reporting of mapping studies is currently lacking. The MAPS (MApping onto Preference-based measures reporting Standards) statement is a new checklist, which aims to promote complete and transparent reporting of mapping studies. The primary audiences for the MAPS statement are researchers reporting mapping studies, the funders of the research, and peer reviewers and editors involved in assessing mapping studies for publication. A de novo list of 29 candidate reporting items and accompanying explanations was created by a working group comprising six health economists and one Delphi methodologist. Following a two-round modified Delphi survey with representatives from academia, consultancy, health technology assessment agencies and the biomedical journal editorial community, a final set of 23 items deemed essential for transparent reporting, and accompanying explanations, was developed. The items are contained in a user-friendly 23-item checklist. They are presented numerically and categorised within six sections, namely: (1) title and abstract; (2) introduction; (3) methods; (4) results; (5) discussion; and (6) other. The MAPS statement is best applied in conjunction with the accompanying MAPS explanation and elaboration document. It is anticipated that the MAPS statement will improve the clarity, transparency and completeness of reporting of mapping studies. To facilitate dissemination and uptake, the MAPS statement is being co-published by seven health economics and quality-of-life journals, and broader endorsement is encouraged. The MAPS working group plans to assess the need for an update of the reporting checklist in 5 years' time.

Radiation hybrid maps of the D-genome of Aegilops tauschii and their application in sequence assembly of large and complex plant genomes.

PubMed

Kumar, Ajay; Seetan, Raed; Mergoum, Mohamed; Tiwari, Vijay K; Iqbal, Muhammad J; Wang, Yi; Al-Azzam, Omar; Šimková, Hana; Luo, Ming-Cheng; Dvorak, Jan; Gu, Yong Q; Denton, Anne; Kilian, Andrzej; Lazo, Gerard R; Kianian, Shahryar F

2015-10-16

The large and complex genome of bread wheat (Triticum aestivum L., ~17 Gb) requires high resolution genome maps with saturated marker scaffolds to anchor and orient BAC contigs/ sequence scaffolds for whole genome assembly. Radiation hybrid (RH) mapping has proven to be an excellent tool for the development of such maps for it offers much higher and more uniform marker resolution across the length of the chromosome compared to genetic mapping and does not require marker polymorphism per se, as it is based on presence (retention) vs. absence (deletion) marker assay. In this study, a 178 line RH panel was genotyped with SSRs and DArT markers to develop the first high resolution RH maps of the entire D-genome of Ae. tauschii accession AL8/78. To confirm map order accuracy, the AL8/78-RH maps were compared with:1) a DArT consensus genetic map constructed using more than 100 bi-parental populations, 2) a RH map of the D-genome of reference hexaploid wheat 'Chinese Spring', and 3) two SNP-based genetic maps, one with anchored D-genome BAC contigs and another with anchored D-genome sequence scaffolds. Using marker sequences, the RH maps were also anchored with a BAC contig based physical map and draft sequence of the D-genome of Ae. tauschii. A total of 609 markers were mapped to 503 unique positions on the seven D-genome chromosomes, with a total map length of 14,706.7 cR. The average distance between any two marker loci was 29.2 cR which corresponds to 2.1 cM or 9.8 Mb. The average mapping resolution across the D-genome was estimated to be 0.34 Mb (Mb/cR) or 0.07 cM (cM/cR). The RH maps showed almost perfect agreement with several published maps with regard to chromosome assignments of markers. The mean rank correlations between the position of markers on AL8/78 maps and the four published maps, ranged from 0.75 to 0.92, suggesting a good agreement in marker order. With 609 mapped markers, a total of 2481 deletions for the whole D-genome were detected with an average deletion size of 42.0 Mb. A total of 520 markers were anchored to 216 Ae. tauschii sequence scaffolds, 116 of which were not anchored earlier to the D-genome. This study reports the development of first high resolution RH maps for the D-genome of Ae. tauschii accession AL8/78, which were then used for the anchoring of unassigned sequence scaffolds. This study demonstrates how RH mapping, which offered high and uniform resolution across the length of the chromosome, can facilitate the complete sequence assembly of the large and complex plant genomes.

Mental Maps: A new instrument for teaching-learning-evaluation of engineering students

NASA Astrophysics Data System (ADS)

Oleschko, K.

2009-04-01

The use of interactive mind maps for teaching-learning-evaluation of postgraduate students is still not very common in Geosciences. Notwithstanding, these maps allow students to organize the huge volumes of information and data they are faced with (www.spinscape.com) for efficient research project elaboration and for understanding of basic anzatz and conjectures (Singer, 2009). The elaboration of mind maps is introduced as a principle teaching-learning-evaluation instrument (Cruza and Fierros, 2006) in my Research Methodology Seminar. Each student should to construct three types of multiscale mind maps before to write the formal proposal (Curiel and Radvansky, 2004; Zimmer, 2004). The main goal is to show how useful is to manage the physical, mathematical and linguistic information on the same structured way (Montibeller and Belton, 2009; Chu et al., 2009). The mental representation of the spatially and time organized physical world (physical map) is combined with the design of hierarchical tree of mathematical models used to describe it in mathematical terms (the map composed only by mathematical symbols), visualizing this tree branches by corresponding images inside the third map consisting on images. This three-faced representation of each research project helps the participant to perceive the complex nature of studied systems and visualize their features of universality and scale invariance. The maṕs elaboration is considered to be finished when any student of other specialties become able to present it in acceptable scientific way. Some examples of recent mental maps elaborated by the master degree students of Queretaro University, Mexico will be presented and discussed. Based on my experience I recommend this education technique in order to pass from sustainable engineer teaching to educate the engineers of Sustainability. References 1. Chu, H.-Ch., Chen, M.-Y., Chen, Y.-M., 2009. A semantic-based approach to content abstraction and annotation for content management. Expert Systems and Applications, 36: 2360-2376. 2. Cruza, N.S. and Fierros, L.E., 2006. Utility of conceptual schemes and mental maps on the teaching-learning process of residents in pediatrics. Gac. Med. Mex., 146 (6):457-465. 3. Curiel, J.M. and Radvansky, G.A., 2004. The accuracy of spatial information from temporally and spatially organized mental maps. Psychon. Bull. Rev., 11 (2):314-319. 4. Montibeller, G. and Belton, V. , 2009. Qualitative operators for reasoning maps: Evaluating multi-criteria options with networks of reasons. European J. of Operational Res., 195: 829-840. 5. Singer, F.M., 2009. The dynamic infrastructure of mind - A hypothesis and some of its applications. New ideas in Psychology, 27: 48-74. 6. http://www.spinscape.com 7. Zimmer, H.D. The construction of mental maps based on a fragmented view of physical maps. J. of Educational Psychology, 96 (3): 603-610.

Fine genetic mapping of spot blotch resistance gene Sb3 in wheat (Triticum aestivum).

PubMed

Lu, Ping; Liang, Yong; Li, Delin; Wang, Zhengzhong; Li, Wenbin; Wang, Guoxin; Wang, Yong; Zhou, Shenghui; Wu, Qiuhong; Xie, Jingzhong; Zhang, Deyun; Chen, Yongxing; Li, Miaomiao; Zhang, Yan; Sun, Qixin; Han, Chenggui; Liu, Zhiyong

2016-03-01

Spot blotch disease resistance gene Sb3 was mapped to a 0.15 centimorgan (cM) genetic interval spanning a 602 kb physical genomic region on chromosome 3BS. Wheat spot blotch disease, caused by B. sorokiniana, is a devastating disease that can cause severe yield losses. Although inoculum levels can be reduced by planting disease-free seed, treatment of plants with fungicides and crop rotation, genetic resistance is likely to be a robust, economical and environmentally friendly tool in the control of spot blotch. The winter wheat line 621-7-1 confers immune resistance against B. sorokiniana. Genetic analysis indicates that the spot blotch resistance of 621-7-1 is controlled by a single dominant gene, provisionally designated Sb3. Bulked segregant analysis (BSA) and simple sequence repeat (SSR) mapping showed that Sb3 is located on chromosome arm 3BS linked with markers Xbarc133 and Xbarc147. Seven and twelve new polymorphic markers were developed from the Chinese Spring 3BS shotgun survey sequence contigs and 3BS reference sequences, respectively. Finally, Sb3 was mapped in a 0.15 cM genetic interval spanning a 602 kb physical genomic region of Chinese Spring chromosome 3BS. The genetic and physical maps of Sb3 provide a framework for map-based cloning and marker-assisted selection (MAS) of the spot blotch resistance.

A presentation of the differences between the sheep and goat genetic maps

PubMed Central

2005-01-01

The current autosomal version (4.2) of the sheep genetic map comprises 1175 loci and spans ~3540 cM. This corresponds to almost complete coverage of the sheep genome. Each chromosome is represented by a single linkage group, with the largest gap between adjacent loci being 19.8 cM. In contrast the 1998 goat genetic map (the most recently published) is much less well developed spanning 2737 cM and comprising only 307 loci. Only one of the goat chromosomes appears to have complete coverage (chromosome 27), and 16 of the chromosomes are comprised of two or more linkage groups, or a linkage group and one or more unlinked markers. The two maps share 218 loci, and the maps have been aligned using the shared loci as reference points. Overall there is good agreement between the maps in terms of homologous loci mapping to equivalent chromosomes in the two species, with only four markers mapping to non-equivalent chromosomes. However, there are lots of inversions in locus order between the sheep and goat chromosomes. Whilst some of these differences in locus order may be genuine, the majority are likely to be a consequence of the paucity of genetic information for the goat map. PMID:15601590

Unveiling Pluto's global surface composition through modeling of New Horizons Ralph/LEISA data

NASA Astrophysics Data System (ADS)

Protopapa, Silvia; Grundy, W. M.; Reuter, D. C.; Hamilton, D. P.; Dalle Ore, Cristina M.; Cook, Jason C.; Cruikshank, Dale P.; Philippe, Sylvain; Quirico, Eric; Schmitt, Bernard; Parker, Alex; Binzel, Richard; Earle, Alissa M.; Ennico, Kimberly; Howett, Carly; Lunsford, A. W.; Olkin, Catherine B.; Singer, Kelsi N.; Stern, S. Alan; Weaver, Harold A.; Young, Leslie; New Horizons Science Team

2016-10-01

We present compositional maps of Pluto derived from data collected with the Linear Etalon Imaging Spectral Array (LEISA), part of the New Horizons Ralph instrument (Reuter et al., 2008). Previous analysis of band depths, equivalent widths, and principal components have permitted qualitative analysis of the physical state of Pluto's surface (Grundy et al. 2016; Schmitt et al. 2016); the maps presented here are fully quantitative, generated by applying a complete pixel-by-pixel Hapke radiative transfer model to the near infrared LEISA spectral cubes. These maps quantify the spatial distribution of both the absolute abundances and textural properties of the volatiles methane and nitrogen ices and non volatiles water ice and tholin. Substantial reservoirs of methane and nitrogen ices cover the substratum which, in the absence of volatiles, reveals the presence of water ice, as expected given Pluto's size and temperature. We identify large scale latitudinal variations of methane and nitrogen ices which can help setting constraints to volatile transport models. To the north, by about 55 deg latitude, the nitrogen abundance smoothly tapers off to an expansive polar plain of predominantly methane ice. This transition well correlates with expectations of vigorous spring sublimation after a long polar winter. Continuous illumination northward of 75 deg over the past twenty years, and northward of 55 deg over the past ten years, seems to have sublimated the most volatile nitrogen into the atmosphere, with the best chance for redeposition occurring at points southward. This loss of surface nitrogen appears to have created the polar bald spot seen in our maps and also predicted by Hansen and Paige (1996). Regions that stands out for composition with respect to the latitudinal pattern described above are also going to be discussed. An example is given by informally named Sputnik Planum, where the physical properties of methane and nitrogen are suggestive of the presence of a cold trap or possible volatile stratification.This work was supported by NASA's New Horizons project. S. Protopapa thanks the NASA grant #NNX16AC83G.

Genetic analysis and fine mapping of a rice brown planthopper (Nilaparvata lugens Stål) resistance gene bph19(t).

PubMed

Chen, J W; Wang, L; Pang, X F; Pan, Q H

2006-04-01

Genetic analysis and fine mapping of a resistance gene against brown planthopper (BPH) biotype 2 in rice was performed using two F(2) populations derived from two crosses between a resistant indica cultivar (cv.), AS20-1, and two susceptible japonica cvs., Aichi Asahi and Lijiangxintuanheigu. Insect resistance was evaluated using F(1) plants and the two F(2) populations. The results showed that a single recessive gene, tentatively designated as bph19(t), conditioned the resistance in AS20-1. A linkage analysis, mainly employing microsatellite markers, was carried out in the two F(2) populations through bulked segregant analysis and recessive class analysis (RCA), in combination with bioinformatics analysis (BIA). The resistance gene locus bph19(t) was finely mapped to a region of about 1.0 cM on the short arm of chromosome 3, flanked by markers RM6308 and RM3134, where one known marker RM1022, and four new markers, b1, b2, b3 and b4, developed in the present study were co-segregating with the locus. To physically map this locus, the bph19(t)-linked markers were landed on bacterial artificial chromosome or P1 artificial chromosome clones of the reference cv., Nipponbare, released by the International Rice Genome Sequencing Project. Sequence information of these clones was used to construct a physical map of the bph19(t) locus, in silico, by BIA. The bph19(t) locus was physically defined to an interval of about 60 kb. The detailed genetic and physical maps of the bph19(t) locus will facilitate marker-assisted gene pyramiding and cloning.

A novel genome-wide microsatellite resource for species of Eucalyptus with linkage-to-physical correspondence on the reference genome sequence.

PubMed

Grattapaglia, Dario; Mamani, Eva M C; Silva-Junior, Orzenil B; Faria, Danielle A

2015-03-01

Keystone species in their native ranges, eucalypts, are ecologically and genetically very diverse, growing naturally along extensive latitudinal and altitudinal ranges and variable environments. Besides their ecological importance, eucalypts are also the most widely planted trees for sustainable forestry in the world. We report the development of a novel collection of 535 microsatellites for species of Eucalyptus, 494 designed from ESTs and 41 from genomic libraries. A selected subset of 223 was evaluated for individual identification, parentage testing, and ancestral information content in the two most extensively studied species, Eucalyptus grandis and Eucalyptus globulus. Microsatellites showed high transferability and overlapping allele size range, suggesting they have arisen still in their common ancestor and confirming the extensive genome conservation between these two species. A consensus linkage map with 437 microsatellites, the most comprehensive microsatellite-only genetic map for Eucalyptus, was built by assembling segregation data from three mapping populations and anchored to the Eucalyptus genome. An overall colinearity between recombination-based and physical positioning of 84% of the mapped microsatellites was observed, with some ordering discrepancies and sporadic locus duplications, consistent with the recently described whole genome duplication events in Eucalyptus. The linkage map covered 95.2% of the 605.8-Mbp assembled genome sequence, placing one microsatellite every 1.55 Mbp on average, and an overall estimate of physical to recombination distance of 618 kbp/cM. The genetic parameters estimates together with linkage and physical position data for this large set of microsatellites should assist marker choice for genome-wide population genetics and comparative mapping in Eucalyptus. © 2014 John Wiley & Sons Ltd.

Integration of Physical, Genetic, and Cytogenetic Mapping Data for Cellulose Synthase (CesA) Genes in Flax (Linum usitatissimum L.).

PubMed

Yurkevich, Olga Y; Kirov, Ilya V; Bolsheva, Nadezhda L; Rachinskaya, Olga A; Grushetskaya, Zoya E; Zoschuk, Svyatoslav A; Samatadze, Tatiana E; Bogdanova, Marina V; Lemesh, Valentina A; Amosova, Alexandra V; Muravenko, Olga V

2017-01-01

Flax, Linum usitatissimum L., is a valuable multi-purpose plant, and currently, its genome is being extensively investigated. Nevertheless, mapping of genes in flax genome is still remaining a challenging task. The cellulose synthase ( CesA ) multigene family involving in the process of cellulose synthesis is especially important for metabolism of this fiber crop. For the first time, fluorescent in situ hybridization (FISH)-based chromosomal localization of the CesA conserved fragment (KF011584.1), 5S, and 26S rRNA genes was performed in landrace, oilseed, and fiber varieties of L. usitatissimum . Intraspecific polymorphism in chromosomal distribution of KF011584.1 and 5S DNA loci was revealed, and the generalized chromosome ideogram was constructed. Using BLAST analysis, available data on physical/genetic mapping and also whole-genome sequencing of flax, localization of KF011584.1, 45S, and 5S rRNA sequences on genomic scaffolds, and their anchoring to the genetic map were conducted. The alignment of the results of FISH and BLAST analyses indicated that KF011584.1 fragment revealed on chromosome 3 could be anchored to linkage group (LG) 11. The common LG for 45S and 5S rDNA was not found probably due to the polymorphic localization of 5S rDNA on chromosome 1. Our findings indicate the complexity of integration of physical, genetic, and cytogenetic mapping data for multicopy gene families in plants. Nevertheless, the obtained results can be useful for future progress in constructing of integrated physical/genetic/cytological maps in L. usitatissimum which are essential for flax breeding.

Integration of Physical, Genetic, and Cytogenetic Mapping Data for Cellulose Synthase (CesA) Genes in Flax (Linum usitatissimum L.)

PubMed Central

Yurkevich, Olga Y.; Kirov, Ilya V.; Bolsheva, Nadezhda L.; Rachinskaya, Olga A.; Grushetskaya, Zoya E.; Zoschuk, Svyatoslav A.; Samatadze, Tatiana E.; Bogdanova, Marina V.; Lemesh, Valentina A.; Amosova, Alexandra V.; Muravenko, Olga V.

2017-01-01

Flax, Linum usitatissimum L., is a valuable multi-purpose plant, and currently, its genome is being extensively investigated. Nevertheless, mapping of genes in flax genome is still remaining a challenging task. The cellulose synthase (CesA) multigene family involving in the process of cellulose synthesis is especially important for metabolism of this fiber crop. For the first time, fluorescent in situ hybridization (FISH)-based chromosomal localization of the CesA conserved fragment (KF011584.1), 5S, and 26S rRNA genes was performed in landrace, oilseed, and fiber varieties of L. usitatissimum. Intraspecific polymorphism in chromosomal distribution of KF011584.1 and 5S DNA loci was revealed, and the generalized chromosome ideogram was constructed. Using BLAST analysis, available data on physical/genetic mapping and also whole-genome sequencing of flax, localization of KF011584.1, 45S, and 5S rRNA sequences on genomic scaffolds, and their anchoring to the genetic map were conducted. The alignment of the results of FISH and BLAST analyses indicated that KF011584.1 fragment revealed on chromosome 3 could be anchored to linkage group (LG) 11. The common LG for 45S and 5S rDNA was not found probably due to the polymorphic localization of 5S rDNA on chromosome 1. Our findings indicate the complexity of integration of physical, genetic, and cytogenetic mapping data for multicopy gene families in plants. Nevertheless, the obtained results can be useful for future progress in constructing of integrated physical/genetic/cytological maps in L. usitatissimum which are essential for flax breeding. PMID:28878799

From printed geological maps to web-based service oriented data products - strategies, foundations and problems.

NASA Astrophysics Data System (ADS)

Ebner, M.; Schiegl, M.; Stöckl, W.; Heger, H.

2012-04-01

The Geological Survey of Austria is legally obligated by the INSPIRE directive to provide data that fall under this directive (geology, mineral resources and natural risk zones) to the European commission in a semantically harmonized and technically interoperable way. Until recently the focus was entirely on the publication of high quality printed cartographic products. These have a complex (carto-)graphic data-model, which allows visualizing several thematic aspects, such as lithology, stratigraphy, tectonics, geologic age, mineral resources, mass movements, geomorphology etc. in a single planar map/product. Nonetheless these graphic data-models do not allow retrieving individual thematic aspects since these were coded in a complex portrayal scheme. Automatic information retrieval is thus impossible; and domain knowledge is necessary to interpret these "encrypted datasets". With INSPIRE becoming effective and a variety of conceptual models (e.g. GeoSciML), built around a semantic framework (i.e. controlled vocabularies), being available it is necessary to develop a strategy and workflow for semantic harmonization of such datasets. In this contribution we demonstrate the development of a multistage workflow which will allow us to transform our printed maps to semantically enabled datasets and services and discuss some prerequisites, foundations and problems. In a first step in our workflow we analyzed our maps and developed controlled vocabularies that describe the thematic content of our data. We then developed a physical data-model which we use to attribute our spatial data with thematic information from our controlled vocabularies to form core thematic data sets. This physical data model is geared towards use on an organizational level but builds upon existing standards (INSPIRE, GeoSciML) to allow transformation to international standards. In a final step we will develop a standardized mapping scheme to publish INSPIRE conformant services from our core datasets. This two-step transformation is necessary since a direct mapping to international standards is not possible for traditional map-based data. Controlled vocabularies provide the foundation of a semantic harmonization. For the encoding of the vocabularies we build upon the W3C standard SKOS (=Simple Knowledge Organisation System), a thesaurus specification for the semantic web, which is itself based on the Resource Description Framework (RDF) and RDF Schema and added some DublinCore and VoID for the metadata of our vocabularies and resources. For the development of these thesauri we use the commercial software PoolParty, which is a tool specially build to develop, manage and publish multilingual thesauri. The corporate thesauri of the Austrian Geological Survey are exposed via a web-service that is conformant with the linked data principles. This web-service gives access to a (1) RDF/HTML representation of the resources via a simple, robust and thus persistent http URIs (2) a download of the complete vocabularies in RDF-format (3) a full-fledged SPARQL-Endpoint to query the thesaurus. With the development of physical data-models (based on preexisting conceptual models) one must dismiss the classical schemes of map-based portrayal of data. E.g. for individual Geological units on traditional geological maps usually a single age range is given (e.g. formation age). But one might want to attribute several geologic ages (formation age, metamorphic age, cooling ages etc.) to individual units. Such issues have to be taken into account when developing robust physical data-models. Based on our experience we are convinced that individual institutions need to develop their own controlled vocabularies and individual data-models that fit the specific needs on an organizational level. If externally developed vocabularies and data-models are introduced to established workflows newly generated and existing data may be diverging and it will be hard to achieve or maintain a common standard. We thus suggest that it is necessary for institutions to keep (or develop) to their organizational standards and vocabularies and map them to generally agreed international standards such as INSPIRE or GeoSciML in a fashion suggested by the linked data principles.

Fish assemblage composition and mapped mesohabitat features over a range of streamflows in the Middle Rio Grande, New Mexico, winter 2011-12, summer 2012

USGS Publications Warehouse

Pearson, Daniel K.; Braun, Christopher L.; Moring, J. Bruce

2016-01-21

This report documents differences in the mapped spatial extents and physical characteristics of in-channel fish habitat evaluated at the mesohabitat scale during winter 2011–12 (moderate streamflow) and summer 2012 (low streamflow) at 15 sites on the Middle Rio Grande in New Mexico starting about 3 kilometers downstream from Cochiti Dam and ending about 40 kilometers upstream from Elephant Butte Reservoir. The results of mesohabitat mapping, physical characterization, and fish assemblage surveys are summarized from the data that were collected. The report also presents general comparisons of physical mesohabitat data, such as wetted area and substrate type, and biological mesohabitat data, which included fish assemblage composition, species richness, Rio Grande silvery minnow relative abundance, and Rio Grande silvery minnow catch per unit effort.

Construction of the physical map of the gpa7 locus reveals that a large segment was deleted during rice domestication.

PubMed

Li, Xianran; Tian, Feng; Huang, Haiyan; Tan, Lubin; Zhu, Zuofeng; Hu, Songnian; Sun, Chuanqing

2008-06-01

To facilitate cloning gene(s) underlying gpa7, a deep-coverage BAC library was constructed for an isolate of common wild rice (Oryza rufipogon Griff.) collected from Dongxiang, Jiangxi Province, China (DXCWR). gpa7, a quantitative trait locus corresponding to grain number per panicle, is positioned in the short arm of chromosome 7. The BAC library containing 96,768 clones represents approximate 18 haploid genome equivalents. The contig spanning DXCWR gpa7 was constructed with a series of ordered markers. The putative physical map near the gpa7 locus of another accession of O. rufipogon (Accession: IRGC 105491) was also isolated in silico. Analysis of the physical maps of gpa7 indicated that a segment of about 150 kb was deleted during domestication of common wild rice.

Mapmaking | USDA Plant Hardiness Zone Map

Science.gov Websites

USDA Logo Agricultural Research Service United States Department of Agriculture Mapping by PRISM completed, it was reviewed by a team of climatologists, agricultural meteorologists, and horticultural

Land Ecology Essay I: The siren song of the finish line

USDA-ARS?s Scientific Manuscript database

As the National Cooperative Soils Survey nears the completion of initial mapping and description activities, the options for next steps are being considered. One option is to deploy new and emerging mapping technologies for existing and refined concepts of soil behavior to create more precise maps ...

Preferred Reporting Items for Studies Mapping onto Preference-Based Outcome Measures: The MAPS Statement.

PubMed

Petrou, Stavros; Rivero-Arias, Oliver; Dakin, Helen; Longworth, Louise; Oppe, Mark; Froud, Robert; Gray, Alastair

2015-10-01

'Mapping' onto generic preference-based outcome measures is increasingly being used as a means of generating health utilities for use within health economic evaluations. Despite publication of technical guides for the conduct of mapping research, guidance for the reporting of mapping studies is currently lacking. The MAPS (MApping onto Preference-based measures reporting Standards) statement is a new checklist, which aims to promote complete and transparent reporting of mapping studies. In the absence of previously published reporting checklists or reporting guidance documents, a de novo list of reporting items was created by a working group comprising six health economists and one Delphi methodologist. A two-round, modified Delphi survey, with representatives from academia, consultancy, health technology assessment agencies and the biomedical journal editorial community, was used to identify a list of essential reporting items from this larger list. From the initial de novo list of 29 candidate items, a set of 23 essential reporting items was developed. The items are presented numerically and categorized within six sections: (1) title and abstract; (2) introduction; (3) methods; (4) results; (5) discussion; and (6) other. The MAPS statement is best applied in conjunction with the accompanying MAPS Explanation and Elaboration paper. It is anticipated that the MAPS statement will improve the clarity, transparency and completeness of the reporting of mapping studies. To facilitate dissemination and uptake, the MAPS statement is being co-published by seven health economics and quality-of-life journals, and broader endorsement is encouraged. The MAPS working group plans to assess the need for an update of the reporting checklist in 5 years' time.

Preferred Reporting Items for Studies Mapping onto Preference-Based Outcome Measures: The MAPS Statement.

PubMed

Petrou, Stavros; Rivero-Arias, Oliver; Dakin, Helen; Longworth, Louise; Oppe, Mark; Froud, Robert; Gray, Alastair

2015-08-01

"Mapping" onto generic preference-based outcome measures is increasingly being used as a means of generating health utilities for use within health economic evaluations. Despite the publication of technical guides for the conduct of mapping research, guidance for the reporting of mapping studies is currently lacking. The MAPS (MApping onto Preference-based measures reporting Standards) statement is a new checklist that aims to promote complete and transparent reporting of mapping studies. In the absence of previously published reporting checklists or reporting guidance documents, a de novo list of reporting items was created by a working group comprised of 6 health economists and 1 Delphi methodologist. A 2-round, modified Delphi survey with representatives from academia, consultancy, health technology assessment agencies, and the biomedical journal editorial community was used to identify a list of essential reporting items from this larger list. From the initial de novo list of 29 candidate items, a set of 23 essential reporting items was developed. The items are presented numerically and categorized within 6 sections, namely: (i) title and abstract; (ii) introduction; (iii) methods; (iv) results; (v) discussion; and (vi) other. The MAPS statement is best applied in conjunction with the accompanying MAPS explanation and elaboration document. It is anticipated that the MAPS statement will improve the clarity, transparency, and completeness of reporting of mapping studies. To facilitate dissemination and uptake, the MAPS statement is being co-published by 7 health economics and quality-of-life journals, and broader endorsement is encouraged. The MAPS working group plans to assess the need for an update of the reporting checklist in 5 years.

Using Mobile App Development Tools to Build a GIS Application

NASA Astrophysics Data System (ADS)

Mital, A.; Catchen, M.; Mital, K.

2014-12-01

Our group designed and built working web, android, and IOS applications using different mapping libraries as bases on which to overlay fire data from NASA. The group originally planned to make app versions for Google Maps, Leaflet, and OpenLayers. However, because the Leaflet library did not properly load on Android, the group focused efforts on the other two mapping libraries. For Google Maps, the group first designed a UI for the web app and made a working version of the app. After updating the source of fire data to one which also provided historical fire data, the design had to be modified to include the extra data. After completing a working version of the web app, the group used webview in android, a built in resource which allowed porting the web app to android without rewriting the code for android. Upon completing this, the group found Apple IOS devices had a similar capability, and so decided to add an IOS app to the project using a function similar to webview. Alongside this effort, the group began implementing an OpenLayers fire map using a simpler UI. This web app was completed fairly quickly relative to Google Maps; however, it did not include functionality such as satellite imagery or searchable locations. The group finished the project with a working android version of the Google Maps based app supporting API levels 14-19 and an OpenLayers based app supporting API levels 8-19, as well as a Google Maps based IOS app supporting both old and new screen formats. This project was implemented by high school and college students under an SGT Inc. STEM internship program

Use of concept maps to promote electrocardiogram diagnosis learning in undergraduate medical students

PubMed Central

Dong, Ruimin; Yang, Xiaoyan; Xing, Bangrong; Zou, Zihao; Zheng, Zhenda; Xie, Xujing; Zhu, Jieming; Chen, Lin; Zhou, Hanjian

2015-01-01

Concept mapping is an effective method in teaching and learning, however this strategy has not been evaluated among electrocardiogram (ECG) diagnosis learning. This study explored the use of concept maps to assist ECG study, and sought to analyze whether this method could improve undergraduate students’ ECG interpretation skills. There were 126 undergraduate medical students who were randomly selected and assigned to two groups, group A (n = 63) and group B (n = 63). Group A was taught to use concept maps to learn ECG diagnosis, while group B was taught by traditional methods. After the course, all of the students were assessed by having an ECG diagnostic test. Quantitative data which comprised test score and ECG features completion index was compared by using the unpaired Student’s t-test between the two groups. Further, a feedback questionnaire on concept maps used was also completed by group A, comments were evaluated by a five-point Likert scale. The test scores of ECGs interpretation was 7.36 ± 1.23 in Group A and 6.12 ± 1.39 in Group B. A significant advantage (P = 0.018) of concept maps was observed in ECG interpretation accuracy. No difference in the average ECG features completion index was observed between Group A (66.75 ± 15.35%) and Group B (62.93 ± 13.17%). According qualitative analysis, majority of students accepted concept maps as a helpful tool. Difficult to learn at the beginning and time consuming are the two problems in using this method, nevertheless most of the students indicated to continue using it. Concept maps could be a useful pedagogical tool in enhancing undergraduate medical students’ ECG interpretation skills. Furthermore, students indicated a positive attitude to it, and perceived it as a resource for learning. PMID:26221331

Extended theory of harmonic maps connects general relativity to chaos and quantum mechanism

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ren, Gang; Duan, Yi-Shi

General relativity and quantum mechanism are two separate rules of modern physics explaining how nature works. Both theories are accurate, but the direct connection between two theories was not yet clarified. Recently, researchers blur the line between classical and quantum physics by connecting chaos and entanglement equation. Here in this paper, we showed the Duan's extended HM theory, which has the solution of the general relativity, can also have the solutions of the classic chaos equations and even the solution of Schrödinger equation in quantum physics, suggesting the extended theory of harmonic maps may act as a universal theory ofmore » physics.« less

Extended theory of harmonic maps connects general relativity to chaos and quantum mechanism

DOE PAGES

Ren, Gang; Duan, Yi-Shi

2017-07-20

General relativity and quantum mechanism are two separate rules of modern physics explaining how nature works. Both theories are accurate, but the direct connection between two theories was not yet clarified. Recently, researchers blur the line between classical and quantum physics by connecting chaos and entanglement equation. Here in this paper, we showed the Duan's extended HM theory, which has the solution of the general relativity, can also have the solutions of the classic chaos equations and even the solution of Schrödinger equation in quantum physics, suggesting the extended theory of harmonic maps may act as a universal theory ofmore » physics.« less

Adiabatic quantum simulation of quantum chemistry.

PubMed

Babbush, Ryan; Love, Peter J; Aspuru-Guzik, Alán

2014-10-13

We show how to apply the quantum adiabatic algorithm directly to the quantum computation of molecular properties. We describe a procedure to map electronic structure Hamiltonians to 2-body qubit Hamiltonians with a small set of physically realizable couplings. By combining the Bravyi-Kitaev construction to map fermions to qubits with perturbative gadgets to reduce the Hamiltonian to 2-body, we obtain precision requirements on the coupling strengths and a number of ancilla qubits that scale polynomially in the problem size. Hence our mapping is efficient. The required set of controllable interactions includes only two types of interaction beyond the Ising interactions required to apply the quantum adiabatic algorithm to combinatorial optimization problems. Our mapping may also be of interest to chemists directly as it defines a dictionary from electronic structure to spin Hamiltonians with physical interactions.

Composite boson mapping for lattice boson systems.

PubMed

Huerga, Daniel; Dukelsky, Jorge; Scuseria, Gustavo E

2013-07-26

We present a canonical mapping transforming physical boson operators into quadratic products of cluster composite bosons that preserves matrix elements of operators when a physical constraint is enforced. We map the 2D lattice Bose-Hubbard Hamiltonian into 2×2 composite bosons and solve it within a generalized Hartree-Bogoliubov approximation. The resulting Mott insulator-superfluid phase diagram reproduces well quantum Monte Carlo results. The Higgs boson behavior in the superfluid phase along the unit density line is unraveled and in remarkable agreement with experiments. Results for the properties of the ground and excited states are competitive with other state-of-the-art approaches, but at a fraction of their computational cost. The composite boson mapping here introduced can be readily applied to frustrated many-body systems where most methodologies face significant hurdles.

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

DOE Office of Scientific and Technical Information (OSTI.GOV)

Othmane, K.B.; Loeb, D.; Roses, A.D.

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.

A hierarchical framework of aquatic ecological units in North America (Nearctic Zone).

Treesearch

James R. Maxwell; Clayton J. Edwards; Mark E. Jensen; Steven J. Paustian; Harry Parrott; Donley M. Hill

1995-01-01

Proposes a framework for classifying and mapping aquatic systems at various scales using ecologically significant physical and biological criteria. Classification and mapping concepts follow tenets of hierarchical theory, pattern recognition, and driving variables. Criteria are provided for the hierarchical classification and mapping of aquatic ecological units of...

Playing Linear Number Board Games Improves Children's Mathematical Knowledge

ERIC Educational Resources Information Center

Siegler, Robert S.; Ramani, Geetha

2009-01-01

The present study focused on two main goals. One was to test the "representational mapping hypothesis": The greater the transparency of the mapping between physical materials and desired internal representations, the greater the learning of the desired internal representation. The implication of the representational mapping hypothesis in the…

DOE Office of Scientific and Technical Information (OSTI.GOV)

Suchanecki, Z.; Antoniou, I.; Tasaki, S.

We consider the problem of rigging for the Koopman operators of the Renyi and the baker maps. We show that the rigged Hilbert space for the Renyi maps has some of the properties of a strict inductive limit and give a detailed description of the rigged Hilbert space for the baker maps. {copyright} {ital 1996 American Institute of Physics.}

Microbial genome sequencing using optical mapping and Illumina sequencing

USDA-ARS?s Scientific Manuscript database

Introduction Optical mapping is a technique in which strands of genomic DNA are digested with one or more restriction enzymes, and a physical map of the genome constructed from the resulting image. In outline, genomic DNA is extracted from a pure culture, linearly arrayed on a specialized glass sli...

Mapping of volcanic units at Alba Patera, Mars

NASA Technical Reports Server (NTRS)

Cattermole, Peter

1987-01-01

Detailed photogeologic mapping of Alba Patera, Northern Tharsis, was completed and a geologic map prepared. This was supplemented by a series of detailed volcanic flow maps and used to study the morphometry of different flow types and analyze the way in which the behavior of the volcano has changed with time and also the manner in which flow fields developed in different sectors of the structure.

Geodatabase model for global geologic mapping: concept and implementation in planetary sciences

NASA Astrophysics Data System (ADS)

Nass, Andrea

2017-04-01

One aim of the NASA Dawn mission is to generate global geologic maps of the asteroid Vesta and the dwarf planet Ceres. To accomplish this, the Dawn Science Team followed the technical recommendations for cartographic basemap production. The geological mapping campaign of Vesta was completed and published, but mapping of the dwarf planet Ceres is still ongoing. The tiling schema for the geological mapping is the same for both planetary bodies and for Ceres it is divided into two parts: four overview quadrangles (Survey Orbit, 415 m/pixel) and 15 more detailed quadrangles (High Altitude Mapping HAMO, 140 m/pixel). The first global geologic map was based on survey images (415 m/pixel). The combine 4 Survey quadrangles completed by HAMO data served as basis for generating a more detailed view of the geologic history and also for defining the chronostratigraphy and time scale of the dwarf planet. The most detailed view can be expected within the 15 mapping quadrangles based on HAMO resolution and completed by the Low Altitude Mapping (LAMO) data with 35 m/pixel. For the interpretative mapping process of each quadrangle one responsible mapper was assigned. Unifying the geological mapping of each quadrangle and bringing this together to regional and global valid statements is already a very time intensive task. However, another challenge that has to be accomplished is to consider how the 15 individual mappers can generate one homogenous GIS-based project (w.r.t. geometrical and visual character) thus produce a geologically-consistent final map. Our approach this challenge was already discussed for mapping of Vesta. To accommodate the map requirements regarding rules for data storage and database management, the computer-based GIS environment used for the interpretative mapping process must be designed in a way that it can be adjusted to the unique features of the individual investigation areas. Within this contribution the template will be presented that uses standards for digitizing, visualization, data merging and synchronization in the processes of interpretative mapping project. Following the new technological innovations within GIS software and the individual requirements for mapping Ceres, a template was developed based on the symbology and framework. The template for (GIS-base) mapping presented here directly links the generically descriptive attributes of planetary objects to the predefined and standardized symbology in one data structure. Using this template the map results are more comparable and better controllable. Furthermore, merging and synchronization of the individual maps, map projects and sheets will be far more efficient. The template can be adapted to any other planetary body and or within future discovery missions (e.g., Lucy and Psyche which was selected to explore the early solar system by NASA) for generating reusable map results.

Global methylation screening in the Arabidopsis thaliana and Mus musculus genome: applications of virtual image restriction landmark genomic scanning (Vi-RLGS)

PubMed Central

Matsuyama, Tomoki; Kimura, Makoto T.; Koike, Kuniaki; Abe, Tomoko; Nakano, Takeshi; Asami, Tadao; Ebisuzaki, Toshikazu; Held, William A.; Yoshida, Shigeo; Nagase, Hiroki

2003-01-01

Understanding the role of ‘epigenetic’ changes such as DNA methylation and chromatin remodeling has now become critical in understanding many biological processes. In order to delineate the global methylation pattern in a given genomic DNA, computer software has been developed to create a virtual image of restriction landmark genomic scanning (Vi-RLGS). When using a methylation- sensitive enzyme such as NotI as the restriction landmark, the comparison between real and in silico RLGS profiles of the genome provides a methylation map of genomic NotI sites. A methylation map of the Arabidopsis genome was created that could be confirmed by a methylation-sensitive PCR assay. The method has also been applied to the mouse genome. Although a complete methylation map has not been completed, a region of methylation difference between two tissues has been tested and confirmed by bisulfite sequencing. Vi-RLGS in conjunction with real RLGS will make it possible to develop a more complete map of genomic sites that are methylated or demethylated as a consequence of normal or abnormal development. PMID:12888509

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.

PubMed

Coleman, M P; Németh, A H; Campbell, L; Raut, C P; Weissenbach, J; Davies, K E

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 (J. Knight et al., 1994, Genomics 21: 180-187), at least four more genes map within 400 kb: a cluster of Krüppel-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. We 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, we 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. We 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.(ABSTRACT TRUNCATED AT 250 WORDS)

Comparative Physical Mapping of the Apospory-Specific Genomic Region in Two Apomictic Grasses: Pennisetum squamulatum and Cenchrus ciliaris

PubMed Central

Goel, Shailendra; Chen, Zhenbang; Akiyama, Yukio; Conner, Joann A.; Basu, Manojit; Gualtieri, Gustavo; Hanna, Wayne W.; Ozias-Akins, Peggy

2006-01-01

In gametophytic apomicts of the aposporous type, each cell of the embryo sac is genetically identical to somatic cells of the ovule because they are products of mitosis, not of meiosis. The egg of the aposporous embryo sac follows parthenogenetic development into an embryo; therefore, uniform progeny result even from heterozygous plants, a trait that would be valuable for many crop species. Attempts to introgress apomixis from wild relatives into major crops through traditional breeding have been hindered by low or no recombination within the chromosomal region governing this trait (the apospory-specific genomic region or ASGR). The lack of recombination also has been a major obstacle to positional cloning of key genes. To further delineate and characterize the nonrecombinant ASGR, we have identified eight new ASGR-linked, AFLP-based molecular markers, only one of which showed recombination with the trait for aposporous embryo sac development. Bacterial artificial chromosome (BAC) clones identified with the ASGR-linked AFLPs or previously mapped markers, when mapped by fluorescence in situ hybridization in Pennisetum squamulatum and Cenchrus ciliaris, showed almost complete macrosynteny between the two apomictic grasses throughout the ASGR, although with an inverted order. A BAC identified with the recombinant AFLP marker mapped most proximal to the centromere of the ASGR-carrier chromosome in P. squamulatum but was not located on the ASGR-carrier chromosome in C. ciliaris. Exceptional regions where synteny was disrupted probably are nonessential for expression of the aposporous trait. The ASGR appears to be maintained as a haplotype even though its position in the genome can be variable. PMID:16547108

Development of pachytene FISH maps for six maize chromosomes and their integration with other maize maps for insights into genome structure variation.

PubMed

Figueroa, Debbie M; Bass, Hank W

2012-05-01

Integrated cytogenetic pachytene fluorescence in situ hybridization (FISH) maps were developed for chromosomes 1, 3, 4, 5, 6, and 8 of maize using restriction fragment length polymorphism marker-selected Sorghum propinquum bacterial artificial chromosomes (BACs) for 19 core bin markers and 4 additional genetic framework loci. Using transgenomic BAC FISH mapping on maize chromosome addition lines of oats, we found that the relative locus position along the pachytene chromosome did not change as a function of total arm length, indicative of uniform axial contraction along the fibers during mid-prophase for tested loci on chromosomes 4 and 5. Additionally, we cytogenetically FISH mapped six loci from chromosome 9 onto their duplicated syntenic regions on chromosomes 1 and 6, which have varying amounts of sequence divergence, using sorghum BACs homologous to the chromosome 9 loci. We found that successful FISH mapping was possible even when the chromosome 9 selective marker had no counterpart in the syntenic block. In total, these 29 FISH-mapped loci were used to create the most extensive pachytene FISH maps to date for these six maize chromosomes. The FISH-mapped loci were then merged into one composite karyotype for direct comparative analysis with the recombination nodule-predicted cytogenetic, genetic linkage, and genomic physical maps using the relative marker positions of the loci on all the maps. Marker colinearity was observed between all pair-wise map comparisons, although marker distribution patterns varied widely in some cases. As expected, we found that the recombination nodule-based predictions most closely resembled the cytogenetic map positions overall. Cytogenetic and linkage map comparisons agreed with previous studies showing a decrease in marker spacing in the peri-centromeric heterochromatin region on the genetic linkage maps. In fact, there was a general trend with most loci mapping closer towards the telomere on the linkage maps than on the cytogenetic maps, regardless of chromosome number or maize inbred line source, with just some of the telomeric loci exempted. Finally and somewhat surprisingly, we observed considerable variation between the relative arm positions of loci when comparing our cytogenetic FISH map to the B73 genomic physical maps, even where comparisons were to a B73-derived cytogenetic map. This variation is more evident between different chromosome arms, but less so within a given arm, ruling out any type of inbred-line dependent global features of linear deoxyribonucleic acid compared with the meiotic fiber organization. This study provides a means for analyzing the maize genome structure by producing new connections for integrating the cytogenetic, linkage, and physical maps of maize.

18 CFR 415.43 - Mapped and unmapped delineations.

Code of Federal Regulations, 2011 CFR

2011-04-01

... data submitted, soil surveys, historic flood maps, high water marks and other empirical data, the... establish the flood protection elevation for the particular site. (c) Pending the preparation and completion...

18 CFR 415.43 - Mapped and unmapped delineations.

Code of Federal Regulations, 2010 CFR

2010-04-01

... data submitted, soil surveys, historic flood maps, high water marks and other empirical data, the... establish the flood protection elevation for the particular site. (c) Pending the preparation and completion...

Maps and geospatial data for the Shorty’s Island and Myrtle Bend substrate enhancement pilot projects, Kootenai River near Bonners Ferry, Idaho, 2014

USGS Publications Warehouse

Fosness, Ryan L.

2014-01-01

This report presents the methods used to develop georeferenced portable document format maps and geospatial data that describe spawning locations and physical habitat characteristics (including egg mat locations, bathymetry, surficial sediment facies, and streamflow velocity) within the substrate enhancement pilot project study area. The results are presented as two maps illustrating the physical habitat characteristics along with proposed habitat enhancement areas, aerial imagery, and hydrography. The results of this study will assist researchers, policy makers, and management agencies in deciding the spatial location and extent of the substrate enhancement pilot project.

Mars Global Geologic Mapping Progress and Suggested Geographic-Based Hierarchal Systems for Unit Grouping and Naming

NASA Technical Reports Server (NTRS)

Tanaka, K. L.; Dohm, J. M.; Irwin, R.; Kolb, E. J.; Skinner, J. A., Jr.; Hare, T. M.

2010-01-01

We are in the fourth year of a fiveyear effort to map the global geology of Mars at 1:20M scale using mainly Mars Global Surveyor, Mars Express, and Mars Odyssey image and altimetry datasets. Previously, we reported on details of project management, mapping datasets (local and regional), initial and anticipated mapping approaches, and tactics of map unit delineation and description [1-2]. Last year, we described mapping and unit delineation results thus far, a new unit identified in the northern plains, and remaining steps to complete the map [3].

Global Map of Pluto

NASA Image and Video Library

2015-07-27

The science team of NASA's New Horizons mission has produced an updated global map of the dwarf planet Pluto. The map includes all resolved images of the surface acquired between July 7-14, 2015, at pixel resolutions ranging from 40 kilometers (24 miles) on the Charon-facing hemisphere (left and right sides of the map) to 400 meters (1,250 feet) on the anti-Charon facing hemisphere (map center). Many additional images are expected in fall of 2015 and these will be used to complete the global map. http://photojournal.jpl.nasa.gov/catalog/PIA19858

The Pilot Lunar Geologic Mapping Project: Summary Results and Recommendations from the Copernicus Quadrangle

NASA Technical Reports Server (NTRS)

Skinner, J. A., Jr.; Gaddis, L. R.; Hagerty, J. J.

2010-01-01

The first systematic lunar geologic maps were completed at 1:1M scale for the lunar near side during the 1960s using telescopic and Lunar Orbiter (LO) photographs [1-3]. The program under which these maps were completed established precedents for map base, scale, projection, and boundaries in order to avoid widely discrepant products. A variety of geologic maps were subsequently produced for various purposes, including 1:5M scale global maps [4-9] and large scale maps of high scientific interest (including the Apollo landing sites) [10]. Since that time, lunar science has benefitted from an abundance of surface information, including high resolution images and diverse compositional data sets, which have yielded a host of topical planetary investigations. The existing suite of lunar geologic maps and topical studies provide exceptional context in which to unravel the geologic history of the Moon. However, there has been no systematic approach to lunar geologic mapping since the flight of post-Apollo scientific orbiters. Geologic maps provide a spatial and temporal framework wherein observations can be reliably benchmarked and compared. As such, a lack of a systematic mapping program means that modern (post- Apollo) data sets, their scientific ramifications, and the lunar scientists who investigate these data, are all marginalized in regard to geologic mapping. Marginalization weakens the overall understanding of the geologic evolution of the Moon and unnecessarily partitions lunar research. To bridge these deficiencies, we began a pilot geologic mapping project in 2005 as a means to assess the interest, relevance, and technical methods required for a renewed lunar geologic mapping program [11]. Herein, we provide a summary of the pilot geologic mapping project, which focused on the geologic materials and stratigraphic relationships within the Copernicus quadrangle (0-30degN, 0-45degW).

48 CFR 4.804-4 - Physically completed contracts.

Code of Federal Regulations, 2012 CFR

2012-10-01

... 48 Federal Acquisition Regulations System 1 2012-10-01 2012-10-01 false Physically completed contracts. 4.804-4 Section 4.804-4 Federal Acquisition Regulations System FEDERAL ACQUISITION REGULATION GENERAL ADMINISTRATIVE MATTERS Government Contract Files 4.804-4 Physically completed contracts. (a...

48 CFR 4.804-4 - Physically completed contracts.

Code of Federal Regulations, 2010 CFR

2010-10-01

... 48 Federal Acquisition Regulations System 1 2010-10-01 2010-10-01 false Physically completed contracts. 4.804-4 Section 4.804-4 Federal Acquisition Regulations System FEDERAL ACQUISITION REGULATION GENERAL ADMINISTRATIVE MATTERS Government Contract Files 4.804-4 Physically completed contracts. (a...

48 CFR 4.804-4 - Physically completed contracts.

Code of Federal Regulations, 2013 CFR

2013-10-01

... 48 Federal Acquisition Regulations System 1 2013-10-01 2013-10-01 false Physically completed contracts. 4.804-4 Section 4.804-4 Federal Acquisition Regulations System FEDERAL ACQUISITION REGULATION GENERAL ADMINISTRATIVE MATTERS Government Contract Files 4.804-4 Physically completed contracts. (a...

48 CFR 4.804-4 - Physically completed contracts.

Code of Federal Regulations, 2011 CFR

2011-10-01

... 48 Federal Acquisition Regulations System 1 2011-10-01 2011-10-01 false Physically completed contracts. 4.804-4 Section 4.804-4 Federal Acquisition Regulations System FEDERAL ACQUISITION REGULATION GENERAL ADMINISTRATIVE MATTERS Government Contract Files 4.804-4 Physically completed contracts. (a...

48 CFR 4.804-4 - Physically completed contracts.

Code of Federal Regulations, 2014 CFR

2014-10-01

... 48 Federal Acquisition Regulations System 1 2014-10-01 2014-10-01 false Physically completed contracts. 4.804-4 Section 4.804-4 Federal Acquisition Regulations System FEDERAL ACQUISITION REGULATION GENERAL ADMINISTRATIVE MATTERS Government Contract Files 4.804-4 Physically completed contracts. (a...

Implementation of the EU environmental noise directive: lessons from the first phase of strategic noise mapping and action planning in Ireland.

PubMed

King, E A; Murphy, E; Rice, H J

2011-03-01

The first phase of noise mapping and action planning in Ireland, in accordance with EU Directive 2002/49/EC, is now complete. In total this included one agglomeration, one airport and approximately 600 km of major roads outside the agglomeration. These noise maps describe the level of noise exposure of approximately 1.25 million people. The first phase of noise mapping was dealt with by five noise mapping bodies while 26 action planning authorities were involved in the development of the associated action plans. The second phase of noise mapping, due to be completed in 2012, sees a reduction in the defined thresholds describing the required agglomerations, roads and railways that have to be mapped. This will have a significant impact on the extent of mapping required. In Ireland this will result in an increased number of local authorities being required to develop strategic noise maps for their area along with the further development of associated action plans. It is appropriate at this point to review the work process and results from the first phase of noise mapping in Ireland in order to establish areas that could be improved, throughout the noise mapping project. In this paper a review of the implementation procedures focussing on (dominant) road traffic noise is presented. It is identified that more standardisation is needed and this could be achieved by the establishment of a national expert steering group. Copyright © 2010 Elsevier Ltd. All rights reserved.

Mapping the Prevalence of Physical Inactivity in U.S. States, 1984-2015.

PubMed

An, Ruopeng; Xiang, Xiaoling; Yang, Yan; Yan, Hai

2016-01-01

Physical inactivity is a leading cause of morbidity, disability and premature mortality in the U.S. and worldwide. This study aimed to map the prevalence of physical inactivity across U.S. states over the past three decades, and estimate the over-time adjusted changes in the prevalence of physical inactivity in each state. Individual-level data (N = 6,701,954) were taken from the 1984-2015 Behavioral Risk Factor Surveillance System (BRFSS), an annually repeated cross-sectional survey of state-representative adult population. Prevalence of self-reported leisure-time physical inactivity was estimated by state and survey year, accounting for the BRFSS sampling design. Logistic regressions were performed to estimate the changes in the prevalence of physical inactivity over the study period for each state, adjusting for individual characteristics including sex, age, race/ethnicity, education, marital status, and employment status. The prevalence of leisure-time physical inactivity varied substantially across states and survey years. In general, the adjusted prevalence of physical inactivity gradually declined over the past three decades in a majority of states. However, a substantial proportion of American adults remain physically inactive. Among the 50 states and District of Columbia, 45 had over a fifth of their adult population without any leisure-time physical activity, and 8 had over 30% without physical activity in 2015. Moreover, the adjusted prevalence of physical inactivity in several states (Arizona, North Carolina, North Dakota, Utah, West Virginia, and Wyoming) remained largely unchanged or even increased (Minnesota and Ohio) over the study period. Although the prevalence of physical inactivity declined over the past three decades in a majority of states, the rates remain substantially high and vary considerably across states. Closely monitoring and tracking physical activity level using the state physical activity maps can help guide policy and program development to promote physical activity and reduce the burden of chronic disease.

Mapping the Prevalence of Physical Inactivity in U.S. States, 1984-2015

PubMed Central

Xiang, Xiaoling; Yang, Yan; Yan, Hai

2016-01-01

Background Physical inactivity is a leading cause of morbidity, disability and premature mortality in the U.S. and worldwide. This study aimed to map the prevalence of physical inactivity across U.S. states over the past three decades, and estimate the over-time adjusted changes in the prevalence of physical inactivity in each state. Methods Individual-level data (N = 6,701,954) were taken from the 1984–2015 Behavioral Risk Factor Surveillance System (BRFSS), an annually repeated cross-sectional survey of state-representative adult population. Prevalence of self-reported leisure-time physical inactivity was estimated by state and survey year, accounting for the BRFSS sampling design. Logistic regressions were performed to estimate the changes in the prevalence of physical inactivity over the study period for each state, adjusting for individual characteristics including sex, age, race/ethnicity, education, marital status, and employment status. Results The prevalence of leisure-time physical inactivity varied substantially across states and survey years. In general, the adjusted prevalence of physical inactivity gradually declined over the past three decades in a majority of states. However, a substantial proportion of American adults remain physically inactive. Among the 50 states and District of Columbia, 45 had over a fifth of their adult population without any leisure-time physical activity, and 8 had over 30% without physical activity in 2015. Moreover, the adjusted prevalence of physical inactivity in several states (Arizona, North Carolina, North Dakota, Utah, West Virginia, and Wyoming) remained largely unchanged or even increased (Minnesota and Ohio) over the study period. Conclusions Although the prevalence of physical inactivity declined over the past three decades in a majority of states, the rates remain substantially high and vary considerably across states. Closely monitoring and tracking physical activity level using the state physical activity maps can help guide policy and program development to promote physical activity and reduce the burden of chronic disease. PMID:27959906

Land use statistics for West Virginia, Part I

USGS Publications Warehouse

Erwin, Robert B.; ,; ,

1979-01-01

The West Virginia Geological and Economic Survey and the United States Geological Survey have completed a cooperative program to provide land-use and land-cover maps and data for the State. This program begins to satisfy a longstanding need for a consistent level of detail, standardization in categorization, and scale of compilation for land-use and land-cover maps and data. The statistical information contained in this Bulletin provides land-use acreage tabulations for the first 20 counties that have been completed. Statistics are being compiled for the remaining counties and will be published shortly. This information has been derived from the recently completed Land-Use Map of West Virginia (on open file at the West Virginia Geological and Economic Survey - Environmental Section). In addition to land-use acreage, we have also included land-use percent. All statistics throughout this Bulletin are in the same format for ease of comparison.

Standard map in magnetized relativistic systems: fixed points and regular acceleration.

PubMed

de Sousa, M C; Steffens, F M; Pakter, R; Rizzato, F B

2010-08-01

We investigate the concept of a standard map for the interaction of relativistic particles and electrostatic waves of arbitrary amplitudes, under the action of external magnetic fields. The map is adequate for physical settings where waves and particles interact impulsively, and allows for a series of analytical result to be exactly obtained. Unlike the traditional form of the standard map, the present map is nonlinear in the wave amplitude and displays a series of peculiar properties. Among these properties we discuss the relation involving fixed points of the maps and accelerator regimes.

Use of Vee Maps in a College Science Laboratory.

ERIC Educational Resources Information Center

Lebowitz, Stacy J.

Students (n=45) in an introductory course in hydrology used a Vee map to guide their laboratory investigation. The Vee mapping technique was utilized by groups of students working together during the investigation and was graded with a scoring rubric developed by the instructor. At the end of the investigation, students completed a survey…

Fast Mapping by Bilingual Children: Storybooks and Cartoons

ERIC Educational Resources Information Center

Van Horn, Danielle; Kan, Pui Fong

2016-01-01

The purpose of this study was to examine the fast mapping skills in Spanish-English bilingual preschool children in two learning contexts: storybook reading and cartoon viewing. Eighteen typically developing Spanish-English bilingual preschool children completed a fast mapping task in Spanish (L1) and in English (L2). In 4 different sessions, each…

Factors associated with physical therapists' implementation of physical activity interventions in The Netherlands.

PubMed

Huijg, Johanna M; Dusseldorp, Elise; Gebhardt, Winifred A; Verheijden, Marieke W; van der Zouwe, Nicolette; Middelkoop, Barend J C; Duijzer, Geerke; Crone, Mathilde R

2015-04-01

Physical therapists play an important role in the promotion of physical activity (PA) and the effectiveness of PA interventions. However, little is known about the extent to which they implement PA interventions following the intervention protocol and about the factors influencing their implementation behaviors. The study objective was to investigate physical therapists' implementation fidelity regarding PA interventions, including completeness and quality of delivery, and influencing factors with a Theoretical Domains Framework-based questionnaire. The study was based on a cross-sectional design. A total of 268 physical therapists completed the Determinants of Implementation Behavior Questionnaire. Questions about completeness and quality of delivery were based on components and tasks of PA interventions as described by the Royal Dutch Society for Physical Therapy. Multilevel regression analyses were used to identify factors associated with completeness and quality of delivery. High implementation fidelity was found for the physical therapists, with higher scores for completeness of delivery than for quality of delivery. Physical therapists' knowledge, skills, beliefs about capabilities and consequences, positive emotions, behavioral regulation, and the automaticity of PA intervention delivery were the most important predictors of implementation fidelity. Together, the Theoretical Domains Framework accounted for 23% of the variance in both total completeness and total quality scores. The cross-sectional design precluded the determination of causal relationships. Also, the use of a self-report measure to assess implementation fidelity could have led to socially desirable responses, possibly resulting in more favorable ratings for completeness and quality. This study enhances the understanding of how physical therapists implement PA interventions and which factors influence their behaviors. Knowledge about these factors may assist in the development of strategies to improve physical therapists' implementation behaviors. © 2015 American Physical Therapy Association.

Middle Atmosphere Program. Handbook for MAP, volume 25

NASA Technical Reports Server (NTRS)

Roper, R. G. (Editor)

1987-01-01

GLOBMET (the Global Meteor Observation System) was first proposed by the Soviet Geophysical Committee and was accepted by the Middle Atmosphere Program Steering Committee in 1982. While the atmospheric dynamics data from the system are of primary interest to MAP, GLOBMET also encompasses the astronomical radio and optical observations of meteoroids, and the physics of their interaction with the Earth's atmosphere. These astronomical observations and interactional physics with the Earth's atmosphere are discussed in detail.

Physical and genetic mapping of the dipeptidase gene DPEP1 to 16q24. 3

DOE Office of Scientific and Technical Information (OSTI.GOV)

Austruy, E.; Jeanpierre, C.; Junien, C.

1993-03-01

The authors report the subregional physical and genetic mapping on chromosome 16q of a cDNA clone selected as a potential tumor/growth suppressor sequence. By DNA sequencing and RNA expression pattern, this clone was identified as part of the renal dipeptidase gene (DPEP1). Using somatic cell hybrids carrying either different human chromosomes or chromosome 16 segments, they confirm and refine the physical mapping of DPEP1 to the chromosome 16 subregion q24.3. Two RFLPs, a biallelic polymorphism detected by TaqI and a VNTR detected by BamHI, EcoRI, and BglII, are described. Using the VNTR polymorphism, DPEP1 was shown to be linked tomore » D16S7 with a maximum lod score of 5.8 at a recombination fraction of 0.03. 14 refs., 2 figs., 2 tabs.« less

European Marine Observation Data Network - EMODnet Physics

NASA Astrophysics Data System (ADS)

Manzella, Giuseppe M. R.; Novellino, Antonio; D'Angelo, Paolo; Gorringe, Patrick; Schaap, Dick; Pouliquen, Sylvie; Loubrieu, Thomas; Rickards, Lesley

2015-04-01

The EMODnet-Physics portal (www.emodnet-physics.eu) makes layers of physical data and their metadata available for use and contributes towards the definition of an operational European Marine Observation and Data Network (EMODnet). It is based on a strong collaboration between EuroGOOS associates and its regional operational systems (ROOSs), and it is bringing together two very different marine communities: the "real time" ocean observing institute/centers and the National Oceanographic Data Centres (NODCs) that are in charge of ocean data validation, quality check and update for marine environmental monitoring. The EMODnet-Physics is a Marine Observation and Data Information System that provides a single point of access to near real time and historical achieved data (www.emodnet-physics.eu/map) it is built on existing infrastructure by adding value and avoiding any unless complexity, it provides data access to users, it is aimed at attracting new data holders, better and more data. With a long-term vision for a pan European Ocean Observation System sustainability, the EMODnet-Physics is supporting the coordination of the EuroGOOS Regional components and the empowerment and improvement of their data management infrastructure. In turn, EMODnet-Physics already implemented high-level interoperability features (WMS, Web catalogue, web services, etc…) to facilitate connection and data exchange with the ROOS and the Institutes within the ROOSs (www.emodnet-physics.eu/services). The on-going EMODnet-Physics structure delivers environmental marine physical data from the whole Europe (wave height and period, temperature of the water column, wind speed and direction, salinity of the water column, horizontal velocity of the water column, light attenuation, and sea level) as monitored by fixed stations, ARGO floats, drifting buoys, gliders, and ferry-boxes. It does provide discovering of data sets (both NRT - near real time - and Historical data sets), visualization and free download of data from more than 1500 platforms. The portal is composed mainly of three sections: the Map, the Selection List and the Station Info Panel. The Map is the core of the EMODnet-Physics system: here the user can access all available data, customize the map visualization and set different display layers. It is also possible to interact with all the information on the map using the filters provided by the service that can be used to select the stations of interest depending on the type, physical parameters measured, the time period of the observations in the database of the system, country of origin, the water basin of reference. It is also possible to browse the data in time by means of the slider in the lower part of the page that allows the user to view the stations that recorded data in a particular time period. Finally, it is possible to change the standard map view with different layers that provide additional visual information on the status of the waters. The Station Info panel available from the main map by clicking on a single platform provides information on the measurements carried out by the station. Moreover, the system provides full interoperability with third-party software through WMS service, Web Service and Web catalogue in order to exchange data and products according to the most recent interop standards. Further developments will ensure the compatibility to the OGS-SWE (Sensor Web Enablement) standard for the description of sensors and related observations using OpenGIS specifications (SensorML, O&M, SOS). The full list of services is available at www.emodnet-physics.eu/services. The result is an excellent example of innovative technologies for providing open and free access to geo-referenced data for the creation of new advanced (operational) oceanography services.

Statistical inference of empirical constituents in partitioned analysis from integral-effect experiments: An application in thermo-mechanical coupling

DOE Office of Scientific and Technical Information (OSTI.GOV)

Stevens, Garrison N.; Atamturktur, Sez; Brown, D. Andrew

Rapid advancements in parallel computing over the last two decades have enabled simulations of complex, coupled systems through partitioning. In partitioned analysis, independently developed constituent models communicate, representing dependencies between multiple physical phenomena that occur in the full system. Figure 1 schematically demonstrates a coupled system with two constituent models, each resolving different physical behavior. In this figure, the constituent model, denoted as the “consumer,” relies upon some input parameter that is being provided by the constituent model acting as a “feeder”. The role of the feeder model is to map operating conditions (i.e. those that are stimulating the process)more » to consumer inputs, thus providing functional inputs to the consumer model*. Problems arise if the feeder model cannot be built–a challenge that is prevalent for highly complex systems in extreme operational conditions that push the limits of our understanding of underlying physical behavior. Often, these are also the situations where separate-effect experiments isolating the physical phenomena are not available; meaning that experimentally determining the unknown constituent behavior is not possible (Bauer and Holland, 1995; Unal et al., 2013), and that integral-effect experiments that reflect the behavior of the complete system tend to be the only available observations. In this paper, the authors advocate for the usefulness of integral-effect experiments in furthering a model developer’s knowledge of the physics principles governing the system behavior of interest.« less

Statistical inference of empirical constituents in partitioned analysis from integral-effect experiments: An application in thermo-mechanical coupling

DOE PAGES

Stevens, Garrison N.; Atamturktur, Sez; Brown, D. Andrew; ...

2018-04-16

Rapid advancements in parallel computing over the last two decades have enabled simulations of complex, coupled systems through partitioning. In partitioned analysis, independently developed constituent models communicate, representing dependencies between multiple physical phenomena that occur in the full system. Figure 1 schematically demonstrates a coupled system with two constituent models, each resolving different physical behavior. In this figure, the constituent model, denoted as the “consumer,” relies upon some input parameter that is being provided by the constituent model acting as a “feeder”. The role of the feeder model is to map operating conditions (i.e. those that are stimulating the process)more » to consumer inputs, thus providing functional inputs to the consumer model*. Problems arise if the feeder model cannot be built–a challenge that is prevalent for highly complex systems in extreme operational conditions that push the limits of our understanding of underlying physical behavior. Often, these are also the situations where separate-effect experiments isolating the physical phenomena are not available; meaning that experimentally determining the unknown constituent behavior is not possible (Bauer and Holland, 1995; Unal et al., 2013), and that integral-effect experiments that reflect the behavior of the complete system tend to be the only available observations. In this paper, the authors advocate for the usefulness of integral-effect experiments in furthering a model developer’s knowledge of the physics principles governing the system behavior of interest.« less

An optimization method of VON mapping for energy efficiency and routing in elastic optical networks

NASA Astrophysics Data System (ADS)

Liu, Huanlin; Xiong, Cuilian; Chen, Yong; Li, Changping; Chen, Derun

2018-03-01

To improve resources utilization efficiency, network virtualization in elastic optical networks has been developed by sharing the same physical network for difference users and applications. In the process of virtual nodes mapping, longer paths between physical nodes will consume more spectrum resources and energy. To address the problem, we propose a virtual optical network mapping algorithm called genetic multi-objective optimize virtual optical network mapping algorithm (GM-OVONM-AL), which jointly optimizes the energy consumption and spectrum resources consumption in the process of virtual optical network mapping. Firstly, a vector function is proposed to balance the energy consumption and spectrum resources by optimizing population classification and crowding distance sorting. Then, an adaptive crossover operator based on hierarchical comparison is proposed to improve search ability and convergence speed. In addition, the principle of the survival of the fittest is introduced to select better individual according to the relationship of domination rank. Compared with the spectrum consecutiveness-opaque virtual optical network mapping-algorithm and baseline-opaque virtual optical network mapping algorithm, simulation results show the proposed GM-OVONM-AL can achieve the lowest bandwidth blocking probability and save the energy consumption.

Conformal mapping for the Helmholtz equation: acoustic wave scattering by a two dimensional inclusion with irregular shape in an ideal fluid.

PubMed

Liu, Gang; Jayathilake, Pahala G; Khoo, Boo Cheong; Han, Feng; Liu, Dian Kui

2012-02-01

The complex variables method with mapping function was extended to solve the linear acoustic wave scattering by an inclusion with sharp/smooth corners in an infinite ideal fluid domain. The improved solutions of Helmholtz equation, shown as Bessel function with mapping function as the argument and fractional order Bessel function, were analytically obtained. Based on the mapping function, the initial geometry as well as the original physical vector can be transformed into the corresponding expressions inside the mapping plane. As all the physical vectors are calculated in the mapping plane (η,η), this method can lead to potential vast savings of computational resources and memory. In this work, the results are validated against several published works in the literature. The different geometries of the inclusion with sharp corners based on the proposed mapping functions for irregular polygons are studied and discussed. The findings show that the variation of angles and frequencies of the incident waves have significant influence on the bistatic scattering pattern and the far-field form factor for the pressure in the fluid. © 2012 Acoustical Society of America

Appendix A: Ecoprovinces of the Central North American Cordillera and adjacent plains

Treesearch

Dennis A. Demarchi

1994-01-01

The fundamental difference between the map presented here and other regional ecosystem classifications is that this map's ecological units are based on climatic processes rather than vegetation communities (map appears at the end of this appendix). Macroclimatic processes are the physical and thermodynamic interaction between climatic controls, or the relatively...

ConMap: Investigating New Computer-Based Approaches to Assessing Conceptual Knowledge Structure in Physics.

ERIC Educational Resources Information Center

Beatty, Ian D.

There is a growing consensus among educational researchers that traditional problem-based assessments are not effective tools for diagnosing a student's knowledge state and for guiding pedagogical intervention, and that new tools grounded in the results of cognitive science research are needed. The ConMap ("Conceptual Mapping") project, described…

On-the-go mapping of soil mechanical resistance using a linear depth effect model.

USDA-ARS?s Scientific Manuscript database

An instrumented blade sensor was developed to map soil mechanical resistance as well as its change with depth. The sensor has become a part of the Integrated Soil Physical Properties Mapping System (ISPPMS), which also includes an optical and a capacitor-based sensor. The instrumented blade of the...

A Control Algorithm for Chaotic Physical Systems

DTIC Science & Technology

1991-10-01

revision expands the grid to cover the entire area of any attractor that is present. 5 Map Selection The final choices of the state- space mapping process...interval h?; overrange R0 ; control parameter interval AkO and range [kbro, khigh]; iteration depth. "* State- space mapping : 1. Set up grid by expanding

Supporting Worth Mapping with Sentence Completion

NASA Astrophysics Data System (ADS)

Cockton, Gilbert; Kujala, Sari; Nurkka, Piia; Hölttä, Taneli

Expectations for design and evaluation approaches are set by the development practices within which they are used. Worth-Centred Development (WCD) seeks to both shape and fit such practices. We report a study that combined two WCD approaches. Sentence completion gathered credible quantitative data on user values, which were used to identify relevant values and aversions of two player groups for an on-line gambling site. These values provided human value elements for a complementary WCD approach of worth mapping. Initial worth maps were extended in three workshops, which focused on outcomes and user experiences that could be better addressed in the current product and associated marketing materials. We describe how worth maps were prepared for, and presented in, workshops, and how product owners and associated business roles evaluated the combination of WCD approaches. Based on our experiences, we offer practical advice on this combinination.

A Tangible Approach to Concept Mapping

NASA Astrophysics Data System (ADS)

Tanenbaum, Karen; Antle, Alissa N.

2009-05-01

The Tangible Concept Mapping project investigates using a tangible user interface to engage learners in concept map creation. This paper describes a prototype implementation of the system, presents some preliminary analysis of its ease of use and effectiveness, and discusses how elements of tangible interaction support concept mapping by helping users organize and structure their knowledge about a domain. The role of physical engagement and embodiment in supporting the mental activity of creating the concept map is explored as one of the benefits of a tangible approach to learning.

Observed and forecast flood-inundation mapping application-A pilot study of an eleven-mile reach of the White River, Indianapolis, Indiana

USGS Publications Warehouse

Kim, Moon H.; Morlock, Scott E.; Arihood, Leslie D.; Kiesler, James L.

2011-01-01

Near-real-time and forecast flood-inundation mapping products resulted from a pilot study for an 11-mile reach of the White River in Indianapolis. The study was done by the U.S. Geological Survey (USGS), Indiana Silver Jackets hazard mitigation taskforce members, the National Weather Service (NWS), the Polis Center, and Indiana University, in cooperation with the City of Indianapolis, the Indianapolis Museum of Art, the Indiana Department of Homeland Security, and the Indiana Department of Natural Resources, Division of Water. The pilot project showed that it is technically feasible to create a flood-inundation map library by means of a two-dimensional hydraulic model, use a map from the library to quickly complete a moderately detailed local flood-loss estimate, and automatically run the hydraulic model during a flood event to provide the maps and flood-damage information through a Web graphical user interface. A library of static digital flood-inundation maps was created by means of a calibrated two-dimensional hydraulic model. Estimated water-surface elevations were developed for a range of river stages referenced to a USGS streamgage and NWS flood forecast point colocated within the study reach. These maps were made available through the Internet in several formats, including geographic information system, Keyhole Markup Language, and Portable Document Format. A flood-loss estimate was completed for part of the study reach by using one of the flood-inundation maps from the static library. The Federal Emergency Management Agency natural disaster-loss estimation program HAZUS-MH, in conjunction with local building information, was used to complete a level 2 analysis of flood-loss estimation. A Service-Oriented Architecture-based dynamic flood-inundation application was developed and was designed to start automatically during a flood, obtain near real-time and forecast data (from the colocated USGS streamgage and NWS flood forecast point within the study reach), run the two-dimensional hydraulic model, and produce flood-inundation maps. The application used local building data and depth-damage curves to estimate flood losses based on the maps, and it served inundation maps and flood-loss estimates through a Web-based graphical user interface.

Improved mapping of the travelling salesman problem for quantum annealing

NASA Astrophysics Data System (ADS)

Troyer, Matthias; Heim, Bettina; Brown, Ethan; Wecker, David

2015-03-01

We consider the quantum adiabatic algorithm as applied to the travelling salesman problem (TSP). We introduce a novel mapping of TSP to an Ising spin glass Hamiltonian and compare it to previous known mappings. Through direct perturbative analysis, unitary evolution, and simulated quantum annealing, we show this new mapping to be significantly superior. We discuss how this advantage can translate to actual physical implementations of TSP on quantum annealers.

Preferred reporting items for studies mapping onto preference-based outcome measures: the MAPS statement.

PubMed

Petrou, Stavros; Rivero-Arias, Oliver; Dakin, Helen; Longworth, Louise; Oppe, Mark; Froud, Robert; Gray, Alastair

2016-02-01

'Mapping' onto generic preference-based outcome measures is increasingly being used as a means of generating health utilities for use within health economic evaluations. Despite publication of technical guides for the conduct of mapping research, guidance for the reporting of mapping studies is currently lacking. The MApping onto Preference-based measures reporting Standards (MAPS) statement is a new checklist, which aims to promote complete and transparent reporting of mapping studies. In the absence of previously published reporting checklists or reporting guidance documents, a de novo list of reporting items was created by a working group comprised of six health economists and one Delphi methodologist. A two-round, modified Delphi survey with representatives from academia, consultancy, health technology assessment agencies and the biomedical journal editorial community was used to identify a list of essential reporting items from this larger list. From the initial de novo list of 29 candidate items, a set of 23 essential reporting items was developed. The items are presented numerically and categorised within six sections, namely (1) title and abstract; (2) introduction; (3) methods; (4) results; (5) discussion; and (6) other. The MAPS statement is best applied in conjunction with the accompanying MAPS explanation and elaboration document. It is anticipated that the MAPS statement will improve the clarity, transparency and completeness of reporting of mapping studies. To facilitate dissemination and uptake, the MAPS statement is being co-published by seven health economics and quality of life journals, and broader endorsement is encouraged. The MAPS working group plans to assess the need for an update of the reporting checklist in 5 years' time.

PREFERRED REPORTING ITEMS FOR STUDIES MAPPING ONTO PREFERENCE-BASED OUTCOME MEASURES: THE MAPS STATEMENT.

PubMed

Petrou, Stavros; Rivero-Arias, Oliver; Dakin, Helen; Longworth, Louise; Oppe, Mark; Froud, Robert; Gray, Alastair

2015-01-01

"Mapping" onto generic preference-based outcome measures is increasingly being used as a means of generating health utilities for use within health economic evaluations. Despite publication of technical guides for the conduct of mapping research, guidance for the reporting of mapping studies is currently lacking. The MAPS (MApping onto Preference-based measures reporting Standards) statement is a new checklist, which aims to promote complete and transparent reporting of mapping studies. In the absence of previously published reporting checklists or reporting guidance documents, a de novo list of reporting items was created by a working group comprised of six health economists and one Delphi methodologist. A two-round, modified Delphi survey with representatives from academia, consultancy, health technology assessment agencies, and the biomedical journal editorial community was used to identify a list of essential reporting items from this larger list. From the initial de novo list of twenty-nine candidate items, a set of twenty-three essential reporting items was developed. The items are presented numerically and categorized within six sections, namely: (i) title and abstract, (ii) introduction, (iii) methods, (iv) results, (v) discussion, and (vi) other. The MAPS statement is best applied in conjunction with the accompanying MAPS explanation and elaboration document. It is anticipated that the MAPS statement will improve the clarity, transparency. and completeness of reporting of mapping studies. To facilitate dissemination and uptake, the MAPS statement is being co-published by seven health economics and quality of life journals, and broader endorsement is encouraged. The MAPS working group plans to assess the need for an update of the reporting checklist in five years' time.

MareyMap Online: A User-Friendly Web Application and Database Service for Estimating Recombination Rates Using Physical and Genetic Maps.

PubMed

Siberchicot, Aurélie; Bessy, Adrien; Guéguen, Laurent; Marais, Gabriel A B

2017-10-01

Given the importance of meiotic recombination in biology, there is a need to develop robust methods to estimate meiotic recombination rates. A popular approach, called the Marey map approach, relies on comparing genetic and physical maps of a chromosome to estimate local recombination rates. In the past, we have implemented this approach in an R package called MareyMap, which includes many functionalities useful to get reliable recombination rate estimates in a semi-automated way. MareyMap has been used repeatedly in studies looking at the effect of recombination on genome evolution. Here, we propose a simpler user-friendly web service version of MareyMap, called MareyMap Online, which allows a user to get recombination rates from her/his own data or from a publicly available database that we offer in a few clicks. When the analysis is done, the user is asked whether her/his curated data can be placed in the database and shared with other users, which we hope will make meta-analysis on recombination rates including many species easy in the future. © The Author 2017. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

SU-F-BRD-07: Fast Monte Carlo-Based Biological Optimization of Proton Therapy Treatment Plans for Thyroid Tumors

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wan Chan Tseung, H; Ma, J; Ma, D

2015-06-15

Purpose: To demonstrate the feasibility of fast Monte Carlo (MC) based biological planning for the treatment of thyroid tumors in spot-scanning proton therapy. Methods: Recently, we developed a fast and accurate GPU-based MC simulation of proton transport that was benchmarked against Geant4.9.6 and used as the dose calculation engine in a clinically-applicable GPU-accelerated IMPT optimizer. Besides dose, it can simultaneously score the dose-averaged LET (LETd), which makes fast biological dose (BD) estimates possible. To convert from LETd to BD, we used a linear relation based on cellular irradiation data. Given a thyroid patient with a 93cc tumor volume, we createdmore » a 2-field IMPT plan in Eclipse (Varian Medical Systems). This plan was re-calculated with our MC to obtain the BD distribution. A second 5-field plan was made with our in-house optimizer, using pre-generated MC dose and LETd maps. Constraints were placed to maintain the target dose to within 25% of the prescription, while maximizing the BD. The plan optimization and calculation of dose and LETd maps were performed on a GPU cluster. The conventional IMPT and biologically-optimized plans were compared. Results: The mean target physical and biological doses from our biologically-optimized plan were, respectively, 5% and 14% higher than those from the MC re-calculation of the IMPT plan. Dose sparing to critical structures in our plan was also improved. The biological optimization, including the initial dose and LETd map calculations, can be completed in a clinically viable time (∼30 minutes) on a cluster of 25 GPUs. Conclusion: Taking advantage of GPU acceleration, we created a MC-based, biologically optimized treatment plan for a thyroid patient. Compared to a standard IMPT plan, a 5% increase in the target’s physical dose resulted in ∼3 times as much increase in the BD. Biological planning was thus effective in escalating the target BD.« less

How do homeless adults change their lives after completing an intensive job-skills program? A prospective study.

PubMed

Gray, Heather M; Nelson, Sarah E; Shaffer, Howard J; Stebbins, Patricia; Farina, Andrea Ryan

2017-09-01

Among people experiencing homelessness, difficulty securing housing is often compounded by concurrent challenges including unemployment, chronic illness, criminal justice involvement, and victimization. The Moving Ahead Program (MAP) is a vocational rehabilitation program that seeks to help adults facing these challenges to secure competitive employment. We prospectively studied how MAP graduates (N = 97) changed from the beginning of MAP to about six months after graduation. We observed a variety of positive outcomes not just in employment and housing but also in health, substance use, and criminal justice involvement. However, these gains were not universal; for instance, participants were less likely to report positive outcomes at follow-up if they started MAP with a serious mental illness, made relatively small gains in work skills, or did not seek mental health treatment during the six months after they completed MAP. These findings might encourage program staff to devote additional resources toward supporting at-risk students.

Adiabatic Quantum Simulation of Quantum Chemistry

PubMed Central

Babbush, Ryan; Love, Peter J.; Aspuru-Guzik, Alán

2014-01-01

We show how to apply the quantum adiabatic algorithm directly to the quantum computation of molecular properties. We describe a procedure to map electronic structure Hamiltonians to 2-body qubit Hamiltonians with a small set of physically realizable couplings. By combining the Bravyi-Kitaev construction to map fermions to qubits with perturbative gadgets to reduce the Hamiltonian to 2-body, we obtain precision requirements on the coupling strengths and a number of ancilla qubits that scale polynomially in the problem size. Hence our mapping is efficient. The required set of controllable interactions includes only two types of interaction beyond the Ising interactions required to apply the quantum adiabatic algorithm to combinatorial optimization problems. Our mapping may also be of interest to chemists directly as it defines a dictionary from electronic structure to spin Hamiltonians with physical interactions. PMID:25308187

Strain screen and haplotype association mapping of wheel running in inbred mouse strains.

PubMed

Lightfoot, J Timothy; Leamy, Larry; Pomp, Daniel; Turner, Michael J; Fodor, Anthony A; Knab, Amy; Bowen, Robert S; Ferguson, David; Moore-Harrison, Trudy; Hamilton, Alicia

2010-09-01

Previous genetic association studies of physical activity, in both animal and human models, have been limited in number of subjects and genetically homozygous strains used as well as number of genomic markers available for analysis. Expansion of the available mouse physical activity strain screens and the recently published dense single-nucleotide polymorphism (SNP) map of the mouse genome (approximately 8.3 million SNPs) and associated statistical methods allowed us to construct a more generalizable map of the quantitative trait loci (QTL) associated with physical activity. Specifically, we measured wheel running activity in male and female mice (average age 9 wk) in 41 inbred strains and used activity data from 38 of these strains in a haplotype association mapping analysis to determine QTL associated with activity. As seen previously, there was a large range of activity patterns among the strains, with the highest and lowest strains differing significantly in daily distance run (27.4-fold), duration of activity (23.6-fold), and speed (2.9-fold). On a daily basis, female mice ran further (24%), longer (13%), and faster (11%). Twelve QTL were identified, with three (on Chr. 12, 18, and 19) in both male and female mice, five specific to males, and four specific to females. Eight of the 12 QTL, including the 3 general QTL found for both sexes, fell into intergenic areas. The results of this study further support the findings of a moderate to high heritability of physical activity and add general genomic areas applicable to a large number of mouse strains that can be further mined for candidate genes associated with regulation of physical activity. Additionally, results suggest that potential genetic mechanisms arising from traditional noncoding regions of the genome may be involved in regulation of physical activity.

All-loop Mondrian diagrammatics and 4-particle amplituhedron

NASA Astrophysics Data System (ADS)

An, Yang; Li, Yi; Li, Zhinan; Rao, Junjie

2018-06-01

Based on 1712.09990 which handles the 4-particle amplituhedron at 3-loop, we have found an extremely simple pattern, yet far more non-trivial than one might naturally expect: the all-loop Mondrian diagrammatics. By further simplifying and rephrasing the key relation of positivity in the amplituhedron setting, remarkably, we find a completeness relation unifying all diagrams of the Mondrian types for the 4-particle integrand of planar N = 4 SYM to all loop orders, each of which can be mapped to a simple product following a few plain rules designed for this relation. The explicit examples we investigate span from 3-loop to 7-loop order, and based on them, we classify the basic patterns of Mondrian diagrams into four types: the ladder, cross, brick-wall and spiral patterns. Interestingly, for some special combinations of ordered subspaces (a concept defined in the previous work), we find failed exceptions of the completeness relation which are called "anomalies", nevertheless, they substantially give hints on the all-loop recursive proof of this relation. These investigations are closely related to the combinatoric knowledge of separable permutations and Schröder numbers, and go even further from a diagrammatic perspective. For physical relevance, we need to further consider dual conformal invariance for two basic diagrammatic patterns to correct the numerator for a local integrand involving one or both of such patterns, while the denominator encoding its pole structure and also the sign factor, are already fixed by rules of the completeness relation. With this extra treatment to ensure the integrals are dual conformally invariant, each Mondrian diagram can be exactly translated to its corresponding physical loop integrand after being summed over all ordered subspaces that admit it.

A cytological-physical map of 22q11

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lindsay, E.A.; Rizzu, P.; Gaddini, L.

Our laboratory is involved in the construction of a cytological-physical map of 22q11 and isolation of expressed sequences from the region involved in DiGeorge syndrome (DGS) and Velo-Cardio-Facial syndrome (VCFS). One of the goals of the mapping is an understanding of the molecular mechanisms which generate the 22q11 microdeletions observed with high frequency in DGS and VCFS. Our of over 60 deleted patients studied in our laboratory, all but one were deleted for two loci approximately 1-2 Mb apart. There is evidence from patients with balanced and unbalanced translocations that deletion of the whole region is not necessary for determinationmore » of the clinical phenotype. Therefore, it is possible that deletion breakpoints occur as a consequence of structural characteristics of the DNA that predispose to rearrangements. A striking characteristic of the 22q11 region is the abundance of low copy repeat sequences. It is reasonable to think that recombination between these repeats may lead to microdeletions. However, a direct demonstration of such mechanism is not available yet. The presence of repeats makes standard physical mapping techniques based on hybridization or STS mapping often difficult to interpret. For example, we have found clones positive for the same STS that are located in different positions within 22q11. For this reason we have used high resolution cytological mapping as a supporting technique for map validation. We present the current status map which includes known polymorphic and non-polymorphic loci, newly isolated clones and chromosomal deletion breakpoints. The map extends from the loci D22S9/D22S24 to TOP1P2. Extended chromatin hybridization experiments visually demonstrate the presence of at least two repeat islands flanking (or at) the region where chromosomal breakpoints of the commonly deleted region occur.« less

Satellite freeze forecast system: Executive summary

NASA Technical Reports Server (NTRS)

Martsolf, J. D. (Principal Investigator)

1983-01-01

A satellite-based temperature monitoring and prediction system consisting of a computer controlled acquisition, processing, and display system and the ten automated weather stations called by that computer was developed and transferred to the national weather service. This satellite freeze forecasting system (SFFS) acquires satellite data from either one of two sources, surface data from 10 sites, displays the observed data in the form of color-coded thermal maps and in tables of automated weather station temperatures, computes predicted thermal maps when requested and displays such maps either automatically or manually, archives the data acquired, and makes comparisons with historical data. Except for the last function, SFFS handles these tasks in a highly automated fashion if the user so directs. The predicted thermal maps are the result of two models, one a physical energy budget of the soil and atmosphere interface and the other a statistical relationship between the sites at which the physical model predicts temperatures and each of the pixels of the satellite thermal map.

Reconstruction of an SSR-based Magnaporthe oryzae physical map to locate avirulence gene AvrPi12.

PubMed

Li, Tonghui; Wen, Jianqiang; Zhang, Yaling; Correll, James; Wang, Ling; Pan, Qinghua

2018-05-31

Pathogen avirulence (Avr) genes can evolve rapidly when challenged by the widespread deployment of host genes for resistance. They can be effectively isolated by positional cloning provided a robust and well-populated genetic map is available. An updated, SSR-based physical map of the rice blast pathogen Magnaporthe oryzae (Mo) has been constructed based on 116 of the 120 SSRs used to assemble the last map, along with 18 newly developed ones. A comparison between the two versions of the map has revealed an altered marker content and order within most of the Mo chromosomes. The avirulence gene AvrPi12 was mapped in a population of 219 progeny derived from a cross between the two Mo isolates CHL42 and CHL357. A bulked segregant analysis indicated that the gene was located on chromosome 6, a conclusion borne out by an analysis of the pattern of segregation shown by individual isolates. Six additional PCR-based markers were developed to improve the map resolution in the key region. AvrPi12 was finally located within the sub-telomeric region of chromosome 6, distal to the SSR locus LSM6-5. The improved SSR-based linkage map should be useful as a platform for gene mapping and isolation in Mo. It was used to establish the location of AvrPi12, thereby providing a starting point for its positional cloning.

Physical Mapping in a Triplicated Genome: Mapping the Downy Mildew Resistance Locus Pp523 in Brassica oleracea L.

PubMed Central

Carlier, Jorge D.; Alabaça, Claudia S.; Sousa, Nelson H.; Coelho, Paula S.; Monteiro, António A.; Paterson, Andrew H.; Leitão, José M.

2011-01-01

We describe the construction of a BAC contig and identification of a minimal tiling path that encompass the dominant and monogenically inherited downy mildew resistance locus Pp523 of Brassica oleracea L. The selection of BAC clones for construction of the physical map was carried out by screening gridded BAC libraries with DNA overgo probes derived from both genetically mapped DNA markers flanking the locus of interest and BAC-end sequences that align to Arabidopsis thaliana sequences within the previously identified syntenic region. The selected BAC clones consistently mapped to three different genomic regions of B. oleracea. Although 83 BAC clones were accurately mapped within a ∼4.6 cM region surrounding the downy mildew resistance locus Pp523, a subset of 33 BAC clones mapped to another region on chromosome C8 that was ∼60 cM away from the resistance gene, and a subset of 63 BAC clones mapped to chromosome C5. These results reflect the triplication of the Brassica genomes since their divergence from a common ancestor shared with A. thaliana, and they are consonant with recent analyses of the C genome of Brassica napus. The assembly of a minimal tiling path constituted by 13 (BoT01) BAC clones that span the Pp523 locus sets the stage for map-based cloning of this resistance gene. PMID:22384370

Simple Map in Action-Angle Coordinates.

NASA Astrophysics Data System (ADS)

Kerwin, Olivia; Punjabi, Alkesh; Ali, Halima

2008-04-01

The simple map is the simplest map that has the topology of a divertor tokamak. The simple map has three canonical representations: (i) the natural coordinates - toroidal magnetic flux and poloidal angle (ψ,θ), (ii) the physical coordinates - the physical variables (R,Z) or (X,Y), and (iii) the action-angle coordinates - (J,θ) or magnetic coordinates (ψ, θ). All three are canonical coordinates for field lines. The simple map in the (X,Y) representation has been studied extensively ^1, 2. Here we analytically calculate the action-angle coordinates and safety factor q for the simple map. We construct the equilibrium generating function for the simple map in action-angle coordinates. We derive the simple map in action-angle representation, and calculate the stochastic broadening of the ideal separatrix due to topological noise in action-angle representation. We also show how the geometric effects such as elongation, the height, and width of the ideal separatrix surface can be investigated using a slight modification of the simple map in action-angle representation. This work is supported by the following grants US Department of Energy - OFES DE-FG02-01ER54624 and DE-FG02-04ER54793 and National Science Foundation - HRD-0630372 and 0411394. [1] A. Punjabi, H. Ali, T. Evans, and A. Boozer, Phys Lett A, 364 140-145 (2007). [2] A. Punjabi, A. Verma, and A. Boozer, Phys.Rev. Lett. 69, 3322 (1992).

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

ERIC Educational Resources Information Center

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…

NASA Structure and Evolution of the Universe Theme: Science Overview

NASA Technical Reports Server (NTRS)

White, Nicholas E.; Margon, Bruce

2001-01-01

The NASA Office of Space Science Structure and Evolution of the Universe (SEU) theme covers a wide variety of scientific investigations, from the nearest bodies to the farthest observable distances just after the time of the Big Bang. SEU supports experiments that sense radiation of all wavelengths, together with particle and gravitational wave detection. Recently completed road mapping and strategic planning exercises have identified a number of near- and medium-term space initiatives for the 2003-2023 time frame. Each of these experiments pushes the state of the art technically, but will return incredible new insights on the formation and evolution of the universe, as well as probe fundamental laws of physics in regimes never before tested. The scientific goals and technological highlights of each mission are described.

A coherent Ising machine for 2000-node optimization problems

NASA Astrophysics Data System (ADS)

Inagaki, Takahiro; Haribara, Yoshitaka; Igarashi, Koji; Sonobe, Tomohiro; Tamate, Shuhei; Honjo, Toshimori; Marandi, Alireza; McMahon, Peter L.; Umeki, Takeshi; Enbutsu, Koji; Tadanaga, Osamu; Takenouchi, Hirokazu; Aihara, Kazuyuki; Kawarabayashi, Ken-ichi; Inoue, Kyo; Utsunomiya, Shoko; Takesue, Hiroki

2016-11-01

The analysis and optimization of complex systems can be reduced to mathematical problems collectively known as combinatorial optimization. Many such problems can be mapped onto ground-state search problems of the Ising model, and various artificial spin systems are now emerging as promising approaches. However, physical Ising machines have suffered from limited numbers of spin-spin couplings because of implementations based on localized spins, resulting in severe scalability problems. We report a 2000-spin network with all-to-all spin-spin couplings. Using a measurement and feedback scheme, we coupled time-multiplexed degenerate optical parametric oscillators to implement maximum cut problems on arbitrary graph topologies with up to 2000 nodes. Our coherent Ising machine outperformed simulated annealing in terms of accuracy and computation time for a 2000-node complete graph.

KSC-2011-7029

NASA Image and Video Library

2011-09-16

VANDENBERG AIR FORCE BASE, Calif. – In a clean room at Vandenberg Air Force Base in California, technicians prepare to complete a second fillet and wing fit check on the Pegasus XL launch vehicle. The Orbital Sciences Corp. Pegasus rocket will launch the Nuclear Spectroscopic Telescope Array (NuSTAR) into space. After the rocket and spacecraft are processed at Vandenberg, they will be flown on the Orbital Sciences’ L-1011 carrier aircraft to the Ronald Reagan Ballistic Missile Defense Test Site at the Pacific Ocean’s Kwajalein Atoll for launch. The high-energy X-ray telescope will conduct a census for black holes, map radioactive material in young supernovae remnants, and study the origins of cosmic rays and the extreme physics around collapsed stars. For more information, visit science.nasa.gov/missions/nustar/. Photo credit: NASA/Randy Beaudoin, VAFB

KSC-2011-7032

NASA Image and Video Library

2011-09-16

VANDENBERG AIR FORCE BASE, Calif. – In a clean room at Vandenberg Air Force Base in California, technicians complete a second fillet and wing fit check on the Pegasus XL launch vehicle. The Orbital Sciences Corp. Pegasus rocket will launch the Nuclear Spectroscopic Telescope Array (NuSTAR) into space. After the rocket and spacecraft are processed at Vandenberg, they will be flown on the Orbital Sciences’ L-1011 carrier aircraft to the Ronald Reagan Ballistic Missile Defense Test Site at the Pacific Ocean’s Kwajalein Atoll for launch. The high-energy X-ray telescope will conduct a census for black holes, map radioactive material in young supernovae remnants, and study the origins of cosmic rays and the extreme physics around collapsed stars. For more information, visit science.nasa.gov/missions/nustar/. Photo credit: NASA/Randy Beaudoin, VAFB

KSC-2011-7033

NASA Image and Video Library

2011-09-16

VANDENBERG AIR FORCE BASE, Calif. – In a clean room at Vandenberg Air Force Base in California, technicians complete a second fillet and wing fit check on the Pegasus XL launch vehicle. The Orbital Sciences Corp. Pegasus rocket will launch the Nuclear Spectroscopic Telescope Array (NuSTAR) into space. After the rocket and spacecraft are processed at Vandenberg, they will be flown on the Orbital Sciences’ L-1011 carrier aircraft to the Ronald Reagan Ballistic Missile Defense Test Site at the Pacific Ocean’s Kwajalein Atoll for launch. The high-energy X-ray telescope will conduct a census for black holes, map radioactive material in young supernovae remnants, and study the origins of cosmic rays and the extreme physics around collapsed stars. For more information, visit science.nasa.gov/missions/nustar/. Photo credit: NASA/Randy Beaudoin, VAFB

KSC-2011-7034

NASA Image and Video Library

2011-09-16

VANDENBERG AIR FORCE BASE, Calif. – In a clean room at Vandenberg Air Force Base in California, technicians complete a second fillet and wing fit check on the Pegasus XL launch vehicle. The Orbital Sciences Corp. Pegasus rocket will launch the Nuclear Spectroscopic Telescope Array (NuSTAR) into space. After the rocket and spacecraft are processed at Vandenberg, they will be flown on the Orbital Sciences’ L-1011 carrier aircraft to the Ronald Reagan Ballistic Missile Defense Test Site at the Pacific Ocean’s Kwajalein Atoll for launch. The high-energy X-ray telescope will conduct a census for black holes, map radioactive material in young supernovae remnants, and study the origins of cosmic rays and the extreme physics around collapsed stars. For more information, visit science.nasa.gov/missions/nustar/. Photo credit: NASA/Randy Beaudoin, VAFB

KSC-2011-7030

NASA Image and Video Library

2011-09-16

VANDENBERG AIR FORCE BASE, Calif. – In a clean room at Vandenberg Air Force Base in California, technicians prepare to complete a second fillet and wing fit check on the Pegasus XL launch vehicle. The Orbital Sciences Corp. Pegasus rocket will launch the Nuclear Spectroscopic Telescope Array (NuSTAR) into space. After the rocket and spacecraft are processed at Vandenberg, they will be flown on the Orbital Sciences’ L-1011 carrier aircraft to the Ronald Reagan Ballistic Missile Defense Test Site at the Pacific Ocean’s Kwajalein Atoll for launch. The high-energy X-ray telescope will conduct a census for black holes, map radioactive material in young supernovae remnants, and study the origins of cosmic rays and the extreme physics around collapsed stars. For more information, visit science.nasa.gov/missions/nustar/. Photo credit: NASA/Randy Beaudoin, VAFB

KSC-2011-7031

NASA Image and Video Library

2011-09-16

VANDENBERG AIR FORCE BASE, Calif. – In a clean room at Vandenberg Air Force Base in California, technicians complete a second fillet and wing fit check on the Pegasus XL launch vehicle. The Orbital Sciences Corp. Pegasus rocket will launch the Nuclear Spectroscopic Telescope Array (NuSTAR) into space. After the rocket and spacecraft are processed at Vandenberg, they will be flown on the Orbital Sciences’ L-1011 carrier aircraft to the Ronald Reagan Ballistic Missile Defense Test Site at the Pacific Ocean’s Kwajalein Atoll for launch. The high-energy X-ray telescope will conduct a census for black holes, map radioactive material in young supernovae remnants, and study the origins of cosmic rays and the extreme physics around collapsed stars. For more information, visit science.nasa.gov/missions/nustar/. Photo credit: NASA/Randy Beaudoin, VAFB

KSC-2011-7028

NASA Image and Video Library

2011-09-16

VANDENBERG AIR FORCE BASE, Calif. – In a clean room at Vandenberg Air Force Base in California, technicians prepare to complete a second fillet and wing fit check on the Pegasus XL launch vehicle. The Orbital Sciences Corp. Pegasus rocket will launch the Nuclear Spectroscopic Telescope Array (NuSTAR) into space. After the rocket and spacecraft are processed at Vandenberg, they will be flown on the Orbital Sciences’ L-1011 carrier aircraft to the Ronald Reagan Ballistic Missile Defense Test Site at the Pacific Ocean’s Kwajalein Atoll for launch. The high-energy X-ray telescope will conduct a census for black holes, map radioactive material in young supernovae remnants, and study the origins of cosmic rays and the extreme physics around collapsed stars. For more information, visit science.nasa.gov/missions/nustar/. Photo credit: NASA/Randy Beaudoin, VAFB

Friedrichs systems in a Hilbert space framework: Solvability and multiplicity

NASA Astrophysics Data System (ADS)

Antonić, N.; Erceg, M.; Michelangeli, A.

2017-12-01

The Friedrichs (1958) theory of positive symmetric systems of first order partial differential equations encompasses many standard equations of mathematical physics, irrespective of their type. This theory was recast in an abstract Hilbert space setting by Ern, Guermond and Caplain (2007), and by Antonić and Burazin (2010). In this work we make a further step, presenting a purely operator-theoretic description of abstract Friedrichs systems, and proving that any pair of abstract Friedrichs operators admits bijective extensions with a signed boundary map. Moreover, we provide sufficient and necessary conditions for existence of infinitely many such pairs of spaces, and by the universal operator extension theory (Grubb, 1968) we get a complete identification of all such pairs, which we illustrate on two concrete one-dimensional examples.

KSC-05pd2637

NASA Image and Video Library

2005-12-17

KENNEDY SPACE CENTER, FLA. - New Horizons arrives at the Vertical Integration Facility at Complex 41 on Cape Canaveral Air Force Station where buildup of its Lockheed Martin Atlas V launch vehicle is complete. New Horizons carries seven scientific instruments that will characterize the global geology and geomorphology of Pluto and its moon Charon, map their surface compositions and temperatures, and examine Pluto's complex atmosphere. After that, flybys of Kuiper Belt objects from even farther in the solar system may be undertaken in an extended mission. New Horizons is the first mission in NASA's New Frontiers program of medium-class planetary missions. The spacecraft, designed for NASA by the Johns Hopkins University Applied Physics Laboratory in Laurel, Md., will launch aboard a Lockheed Martin Atlas V rocket and fly by Pluto and Charon as early as summer 2015.

Overview of Edge Simulation Laboratory (ESL)

NASA Astrophysics Data System (ADS)

Cohen, R. H.; Dorr, M.; Hittinger, J.; Rognlien, T.; Umansky, M.; Xiong, A.; Xu, X.; Belli, E.; Candy, J.; Snyder, P.; Colella, P.; Martin, D.; Sternberg, T.; van Straalen, B.; Bodi, K.; Krasheninnikov, S.

2006-10-01

The ESL is a new collaboration to build a full-f electromagnetic gyrokinetic code for tokamak edge plasmas using continuum methods. Target applications are edge turbulence and transport (neoclassical and anomalous), and edge-localized modes. Initially the project has three major threads: (i) verification and validation of TEMPEST, the project's initial (electrostatic) edge code which can be run in 4D (neoclassical and transport-timescale applications) or 5D (turbulence); (ii) design of the next generation code, which will include more complete physics (electromagnetics, fluid equation option, improved collisions) and advanced numerics (fully conservative, high-order discretization, mapped multiblock grids, adaptivity), and (iii) rapid-prototype codes to explore the issues attached to solving fully nonlinear gyrokinetics with steep radial gradiens. We present a brief summary of the status of each of these activities.

Effectiveness of a Web 2.0 Intervention to Increase Physical Activity in Real-World Settings: Randomized Ecological Trial

PubMed Central

Kolt, Gregory S; Caperchione, Cristina M; Savage, Trevor N; Rosenkranz, Richard R; Maeder, Anthony J; Van Itallie, Anetta; Tague, Rhys; Oldmeadow, Christopher; Mummery, W Kerry; Duncan, Mitch J

2017-01-01

Background The translation of Web-based physical activity intervention research into the real world is lacking and becoming increasingly important. Objective To compare usage and effectiveness, in real-world settings, of a traditional Web 1.0 Web-based physical activity intervention, providing limited interactivity, to a Web 2.0 Web-based physical activity intervention that includes interactive features, such as social networking (ie, status updates, online “friends,” and personalized profile pages), blogs, and Google Maps mash-ups. Methods Adults spontaneously signing up for the freely available 10,000 Steps website were randomized to the 10,000 Steps website (Web 1.0) or the newly developed WALK 2.0 website (Web 2.0). Physical activity (Active Australia Survey), quality of life (RAND 36), and body mass index (BMI) were assessed at baseline, 3 months, and 12 months. Website usage was measured continuously. Analyses of covariance were used to assess change over time in continuous outcome measures. Multiple imputation was used to deal with missing data. Results A total of 1328 participants completed baseline assessments. Only 3-month outcomes (224 completers) were analyzed due to high attrition at 12 months (77 completers). Web 2.0 group participants increased physical activity by 92.8 minutes per week more than those in the Web 1.0 group (95% CI 28.8-156.8; P=.005); their BMI values also decreased more (–1.03 kg/m2, 95% CI –1.65 to -0.41; P=.001). For quality of life, only the physical functioning domain score significantly improved more in the Web 2.0 group (3.6, 95% CI 1.7-5.5; P<.001). The time between the first and last visit to the website (3.57 vs 2.22 weeks; P<.001) and the mean number of days the website was visited (9.02 vs 5.71 days; P=.002) were significantly greater in the Web 2.0 group compared to the Web 1.0 group. The difference in time-to-nonusage attrition was not statistically significant between groups (Hazard Ratio=0.97, 95% CI 0.86-1.09; P=.59). Only 21.99% (292/1328) of participants (n=292 summed for both groups) were still using either website after 2 weeks and 6.55% (87/1328) were using either website after 10 weeks. Conclusions The website that provided more interactive and social features was more effective in improving physical activity in real-world conditions. While the Web 2.0 website was visited significantly more, both groups nevertheless displayed high nonusage attrition and low intervention engagement. More research is needed to examine the external validity and generalizability of Web-based physical activity interventions. Trial Registration Australian New Zealand Clinical Trials Registry: ACTRN12611000253909; https://anzctr.org.au /Trial/Registration/TrialReview.aspx?id=336588&isReview=true (Archived by WebCite at http://www.webcitation.org/6ufzw 2HxD) PMID:29133282

The Transition from Diffuse to Dense Gas in Herschel Dust Emission Maps

NASA Astrophysics Data System (ADS)

Goldsmith, Paul

Dense cores in dark clouds are the sites where young stars form. These regions manifest as relatively small (<0.1pc) pockets of cold and dense gas. If we wish to understand the star formation process, we have to understand the physical conditions in dense cores. This has been a main aim of star formation research in the past decade. Today, we do indeed possess a good knowledge of the density and velocity structure of cores, as well as their chemical evolution and physical lifetime. However, we do not understand well how dense cores form out of the diffuse gas clouds surrounding them. It is crucial that we constrain the relationship between dense cores and their environment: if we only understand dense cores, we may be able to understand how individual stars form --- but we would not know how the star forming dense cores themselves come into existence. We therefore propose to obtain data sets that reveal both dense cores and the clouds containing them in the same map. Based on these maps, we will study how dense cores form out of their natal clouds. Since cores form stars, this knowledge is crucial for the development of a complete theoretical and observational understanding of the formation of stars and their planets, as envisioned in NASA's Strategic Science Plan. Fortunately, existing archival data allow to derive exactly the sort of maps we need for our analysis. Here, we describe a program that exclusively builds on PACS and SPIRE dust emission imaging data from the NASA-supported Herschel mission. The degree-sized wide-field Herschel maps of the nearby (<260pc) Polaris Flare and Aquila Rift clouds are ideal for our work. They permit to resolve dense cores (<0.1pc), while the maps also reveal large-scale cloud structure (5pc and larger). We will generate column density maps from these dust emission maps and then run a tree-based hierarchical multi-scale structure analysis on them. Only this procedure permits to exploit the full potential of the maps: we will characterize cloud structure over a vast range of spatial scales. This work has many advantages over previous studies, where information about dense cores and their environment was pieced together using a variety of methods an instruments. Now, the Herschel maps permit for the first time to characterize both molecular clouds and their cores in one shot in a single data set. We use these data to answer a variety of simple yet very important questions. First, we study whether dense cores have sharp boundaries. If such boundaries exist, they would indicate that dense cores have an individual identity well-separate from the near-fractal cloud structure on larger spatial scales. Second, we will --- in very approximate sense --- derive global density gradients for molecular clouds from radii <0.1pc to 5pc and larger. These "synoptic" density gradients provide a useful quantitative description of the relation between cloud material at very different spatial scales. Also, these measurements can be compared to synoptic density gradients derived in the same fashion for theoretical cloud models. Third, we study how dense cores are nested into the "clumps" forming molecular clouds, i.e., we study whether the most massive dense cores in a cloud (<0.1pc) reside in the most massive regions identified on lager spatial scale (1pc and larger). This will show how the properties of dense cores are influenced by their environment. Our study will derive unique constraints to cloud structure. But our small sample forbids to make strong statements. This pilot study does thus prepare future larger efforts. Our entire project builds on data reduction and analysis methods which our team has used in the past. This guarantees a swift completion of the project with predictable efficiency. We present pilot studies that demonstrate that the data and analysis methods are suited to tackle the science goals. This project is thus guaranteed to return significant results.

A Web-Based Intervention for Health Professionals and Patients to Decrease Cardiovascular Risk Attributable to Physical Inactivity: Development Process

PubMed Central

2012-01-01

Background Patients with cardiovascular risk factors can reduce their risk of cardiovascular disease by increasing their physical activity and their physical fitness. According to the guidelines for cardiovascular risk management, health professionals should encourage their patients to engage in physical activity. Objective In this paper, we provide insight regarding the systematic development of a Web-based intervention for both health professionals and patients with cardiovascular risk factors using the development method Intervention Mapping. The different steps of Intervention Mapping are described to open up the “black box” of Web-based intervention development and to support future Web-based intervention development. Methods The development of the Professional and Patient Intention and Behavior Intervention (PIB2 intervention) was initiated with a needs assessment for both health professionals (ie, physiotherapy and nursing) and their patients. We formulated performance and change objectives and, subsequently, theory- and evidence-based intervention methods and strategies were selected that were thought to affect the intention and behavior of health professionals and patients. The rationale of the intervention was based on different behavioral change methods that allowed us to describe the scope and sequence of the intervention and produced the Web-based intervention components. The Web-based intervention consisted of 5 modules, including individualized messages and self-completion forms, and charts and tables. Results The systematic and planned development of the PIB2 intervention resulted in an Internet-delivered behavior change intervention. The intervention was not developed as a substitute for face-to-face contact between professionals and patients, but as an application to complement and optimize health services. The focus of the Web-based intervention was to extend professional behavior of health care professionals, as well as to improve the risk-reduction behavior of patients with cardiovascular risk factors. Conclusions The Intervention Mapping protocol provided a systematic method for developing the intervention and each intervention design choice was carefully thought-out and justified. Although it was not a rapid or an easy method for developing an intervention, the protocol guided and directed the development process. The application of evidence-based behavior change methods used in our intervention offers insight regarding how an intervention may change intention and health behavior. The Web-based intervention appeared feasible and was implemented. Further research will test the effectiveness of the PIB2 intervention. Trial Registration Dutch Trial Register, Trial ID: ECP-92 PMID:23612470

An interactive method for digitizing zone maps

NASA Technical Reports Server (NTRS)

Giddings, L. E.; Thompson, E. J.

1975-01-01

A method is presented for digitizing maps that consist of zones, such as contour or climatic zone maps. A color-coded map is prepared by any convenient process. The map is then read into memory of an Image 100 computer by means of its table scanner, using colored filters. Zones are separated and stored in themes, using standard classification procedures. Thematic data are written on magnetic tape and these data, appropriately coded, are combined to make a digitized image on tape. Step-by-step procedures are given for digitization of crop moisture index maps with this procedure. In addition, a complete example of the digitization of a climatic zone map is given.

Effectiveness of Concept Maps in Economics: Evidence from Australia and USA

ERIC Educational Resources Information Center

Marangos, John; Alley, Sean

2007-01-01

This paper evaluates the effectiveness of concept maps as a teaching and learning tool in university level Principles of Microeconomics courses in Australia and USA. Concept mapping was incorporated in the teaching material in both courses at different countries and, at the end of the semester, the students completed a survey regarding the use,…

Using Concept Mapping as as Tool for Program Theory Development

ERIC Educational Resources Information Center

Orsi, Rebecca

2011-01-01

The purpose of this methodological study is to explore how well a process called "concept mapping" (Trochim, 1989) can articulate the theory which underlies a social program. Articulation of a program's theory is a key step in completing a sound theory based evaluation (Weiss, 1997a). In this study, concept mapping is used to…

Multispectral Landsat images of Antartica

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lucchitta, B.K.; Bowell, J.A.; Edwards, K.L.

1988-01-01

The U.S. Geological Survey has a program to map Antarctica by using colored, digitally enhanced Landsat multispectral scanner images to increase existing map coverage and to improve upon previously published Landsat maps. This report is a compilation of images and image mosaic that covers four complete and two partial 1:250,000-scale quadrangles of the McMurdo Sound region.

Digital floodplain mapping and an analysis of errors involved

USGS Publications Warehouse

Hamblen, C.S.; Soong, D.T.; Cai, X.

2007-01-01

Mapping floodplain boundaries using geographical information system (GIS) and digital elevation models (DEMs) was completed in a recent study. However convenient this method may appear at first, the resulting maps potentially can have unaccounted errors. Mapping the floodplain using GIS is faster than mapping manually, and digital mapping is expected to be more common in the future. When mapping is done manually, the experience and judgment of the engineer or geographer completing the mapping and the contour resolution of the surface topography are critical in determining the flood-plain and floodway boundaries between cross sections. When mapping is done digitally, discrepancies can result from the use of the computing algorithm and digital topographic datasets. Understanding the possible sources of error and how the error accumulates through these processes is necessary for the validation of automated digital mapping. This study will evaluate the procedure of floodplain mapping using GIS and a 3 m by 3 m resolution DEM with a focus on the accumulated errors involved in the process. Within the GIS environment of this mapping method, the procedural steps of most interest, initially, include: (1) the accurate spatial representation of the stream centerline and cross sections, (2) properly using a triangulated irregular network (TIN) model for the flood elevations of the studied cross sections, the interpolated elevations between them and the extrapolated flood elevations beyond the cross sections, and (3) the comparison of the flood elevation TIN with the ground elevation DEM, from which the appropriate inundation boundaries are delineated. The study area involved is of relatively low topographic relief; thereby, making it representative of common suburban development and a prime setting for the need of accurately mapped floodplains. This paper emphasizes the impacts of integrating supplemental digital terrain data between cross sections on floodplain delineation. ?? 2007 ASCE.

Comparative visualization of genetic and physical maps with Strudel.

PubMed

Bayer, Micha; Milne, Iain; Stephen, Gordon; Shaw, Paul; Cardle, Linda; Wright, Frank; Marshall, David

2011-05-01

Data visualization can play a key role in comparative genomics, for example, underpinning the investigation of conserved synteny patterns. Strudel is a desktop application that allows users to easily compare both genetic and physical maps interactively and efficiently. It can handle large datasets from several genomes simultaneously, and allows all-by-all comparisons between these. Installers for Strudel are available for Windows, Linux, Solaris and Mac OS X at http://bioinf.scri.ac.uk/strudel/.

Mapping porosity of the deep critical zone in 3D using near-surface geophysics, rock physics modeling, and drilling

NASA Astrophysics Data System (ADS)

Flinchum, B. A.; Holbrook, W. S.; Grana, D.; Parsekian, A.; Carr, B.; Jiao, J.

2017-12-01

Porosity is generated by chemical, physical and biological processes that work to transform bedrock into soil. The resulting porosity structure can provide specifics about these processes and can improve understanding groundwater storage in the deep critical zone. Near-surface geophysical methods, when combined with rock physics and drilling, can be a tool used to map porosity over large spatial scales. In this study, we estimate porosity in three-dimensions (3D) across a 58 Ha granite catchment. Observations focus on seismic refraction, downhole nuclear magnetic resonance logs, downhole sonic logs, and samples of core acquired by push coring. We use a novel petrophysical approach integrating two rock physics models, a porous medium for the saprolite and a differential effective medium for the fractured rock, that drive a Bayesian inversion to calculate porosity from seismic velocities. The inverted geophysical porosities are within about 0.05 m3/m3 of lab measured values. We extrapolate the porosity estimates below seismic refraction lines to a 3D volume using ordinary kriging to map the distribution of porosity in 3D up to depths of 80 m. This study provides a unique map of porosity on scale never-before-seen in critical zone science. Estimating porosity on these large spatial scales opens the door for improving and understanding the processes that shape the deep critical zone.

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.

PubMed

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. © 2014 World Obesity.

Preferred reporting items for studies mapping onto preference-based outcome measures: The MAPS statement.

PubMed

Petrou, Stavros; Rivero-Arias, Oliver; Dakin, Helen; Longworth, Louise; Oppe, Mark; Froud, Robert; Gray, Alastair

2015-08-01

'Mapping' onto generic preference-based outcome measures is increasingly being used as a means of generating health utilities for use within health economic evaluations. Despite publication of technical guides for the conduct of mapping research, guidance for the reporting of mapping studies is currently lacking. The MAPS (MApping onto Preference-based measures reporting Standards) statement is a new checklist, which aims to promote complete and transparent reporting of mapping studies. The primary audiences for the MAPS statement are researchers reporting mapping studies, the funders of the research, and peer reviewers and editors involved in assessing mapping studies for publication.A de novo list of 29 candidate reporting items and accompanying explanations was created by a working group comprised of six health economists and one Delphi methodologist. Following a two-round, modified Delphi survey with representatives from academia, consultancy, health technology assessment agencies and the biomedical journal editorial community, a final set of 23 items deemed essential for transparent reporting, and accompanying explanations, was developed. The items are contained in a user friendly 23 item checklist. They are presented numerically and categorised within six sections, namely: (i) title and abstract; (ii) introduction; (iii) methods; (iv) results; (v) discussion; and (vi) other. The MAPS statement is best applied in conjunction with the accompanying MAPS explanation and elaboration document.It is anticipated that the MAPS statement will improve the clarity, transparency and completeness of reporting of mapping studies. To facilitate dissemination and uptake, the MAPS statement is being co-published by eight health economics and quality of life journals, and broader endorsement is encouraged. The MAPS working group plans to assess the need for an update of the reporting checklist in five years' time.This statement was published jointly in Applied Health Economics and Health Policy, Health and Quality of Life Outcomes, International Journal of Technology Assessment in Health Care, Journal of Medical Economics, Medical Decision Making, PharmacoEconomics, and Quality of Life Research.

Spatially Resolved Far-Infrared Spectroscopic Analysis of Planetary Nebulae

NASA Astrophysics Data System (ADS)

Rattray, Rebecca; Ueta, Toshiya

2015-01-01

Planetary Nebulae (PNs) are late-life intermediate-mass (1-8 solar mass) stars that have shed their outer layers. A wide variety of morphologies and physical conditions is seen in PNs, but a complete understanding of what causes these various conditions is still needed. Spatially resolved far-infrared spectroscopic analysis has been performed on 11 targets using both PACS and SPIRE instruments on the Herschel Space Observatory as part of the Herschel Planetary Nebula Survey (HerPlaNS). Far-IR lines probe the ionized parts of the nebulae and suffer less extinction than optical lines, so observations in the far-IR are critical to our complete understanding of PNs. Because PNs are extended objects, the spectral mapping capabilities of both PACS and SPIRE allow us to better understand the spatial variations of the objects by tracking line strengths as a function of location within the nebula. The far-IR lines detected in this study can be used as tracers of electron density and electron temperature which are critical parameters in radiative transfer modeling of PNs. Information on atomic, ionic, and molecular lines identified in these 11 targets will be presented.

Kvichak River RISEC Project Resource Reconnaissance and Physical Characterization

DOE Data Explorer

Jarlath McEntee

2015-10-01

During the summer and fall of 2011 TerraSond Ltd. (TerraSond) completed a bathymetric survey and hydrokinetic energy assessment of the Kvichak River at Igiugig, Alaska. The purpose of this work was to characterize the initial site conditions for the design and installation of a hydrokinetic turbine to provide electric power for the village. There were six distinct phases of work for this project. The first was a literature review and investigation of prior surveys and hydrologic studies done in the area. The second, third, fourth, and fifth phases consisted of four field expeditions conducted over the summer and fall of 2011. These expeditions consisted of an initial reconnaissance, multi beam bathymetric surveys, flow velocity and discharge measurements, a survey of water levels, and detailed flow velocity studies. The final phase of the project was complete data reduction, and preparation of the final report with its accompanying map sheets and data packages. This submission contains the final report for the Kvichak River RiISEC Project in addition to weather data for Igiugig, AK, Summer 2015.

GLASS: detailed structure of high redshift galaxies from HST grism spectroscopy

NASA Astrophysics Data System (ADS)

Jones, Tucker; Treu, Tommaso; Schmidt, Kasper B.; Wang, Xin; Brammer, Gabriel; Glass

2015-01-01

The Grism Lens-Amplified Survey from Space (GLASS) is obtaining slitless near-IR spectroscopy of 10 galaxy clusters selected for their strong lensing properties, including all six Hubble Frontier Fields. The GLASS survey will have gathered more than ten thousand spectra upon completion in early 2015. Slitless grism spectra are ideal for mapping emission lines such as [O II], [O III], and Hα at z=1-3 as well as Lyα at z>6. The combination of strong gravitational lensing and HST's diffraction limit provides excellent sensitivity (~1e-18 erg/s/cm2 RMS) with spatial resolution as fine as 100 pc for highly magnified sources, and ~500 pc for less magnified sources near the edge of the field of view. This enables precise measurements of metallicity gradients, the distribution of star formation, and other details of the physical structure of high redshift galaxies with masses as low as ~107 M⊙ at z=2. I will discuss measurements of these physical properties and implications for galaxy evolution based on the largest sample available to date with such high resolution at z>1.

Direct access inter-process shared memory

DOEpatents

Brightwell, Ronald B; Pedretti, Kevin; Hudson, Trammell B

2013-10-22

A technique for directly sharing physical memory between processes executing on processor cores is described. The technique includes loading a plurality of processes into the physical memory for execution on a corresponding plurality of processor cores sharing the physical memory. An address space is mapped to each of the processes by populating a first entry in a top level virtual address table for each of the processes. The address space of each of the processes is cross-mapped into each of the processes by populating one or more subsequent entries of the top level virtual address table with the first entry in the top level virtual address table from other processes.

Concept Maps as Instructional Tools for Improving Learning of Phase Transitions in Object-Oriented Analysis and Design

ERIC Educational Resources Information Center

Shin, Shin-Shing

2016-01-01

Students attending object-oriented analysis and design (OOAD) courses typically encounter difficulties transitioning from requirements analysis to logical design and then to physical design. Concept maps have been widely used in studies of user learning. The study reported here, based on the relationship of concept maps to learning theory and…

Design and fabrication of complete dentures using CAD/CAM technology

PubMed Central

Han, Weili; Li, Yanfeng; Zhang, Yue; lv, Yuan; Zhang, Ying; Hu, Ping; Liu, Huanyue; Ma, Zheng; Shen, Yi

2017-01-01

Abstract The aim of the study was to test the feasibility of using commercially available computer-aided design and computer-aided manufacturing (CAD/CAM) technology including 3Shape Dental System 2013 trial version, WIELAND V2.0.049 and WIELAND ZENOTEC T1 milling machine to design and fabricate complete dentures. The modeling process of full denture available in the trial version of 3Shape Dental System 2013 was used to design virtual complete dentures on the basis of 3-dimensional (3D) digital edentulous models generated from the physical models. The virtual complete dentures designed were exported to CAM software of WIELAND V2.0.049. A WIELAND ZENOTEC T1 milling machine controlled by the CAM software was used to fabricate physical dentitions and baseplates by milling acrylic resin composite plates. The physical dentitions were bonded to the corresponding baseplates to form the maxillary and mandibular complete dentures. Virtual complete dentures were successfully designed using the software through several steps including generation of 3D digital edentulous models, model analysis, arrangement of artificial teeth, trimming relief area, and occlusal adjustment. Physical dentitions and baseplates were successfully fabricated according to the designed virtual complete dentures using milling machine controlled by a CAM software. Bonding physical dentitions to the corresponding baseplates generated the final physical complete dentures. Our study demonstrated that complete dentures could be successfully designed and fabricated by using CAD/CAM. PMID:28072686

Resultant as the determinant of a Koszul complex

NASA Astrophysics Data System (ADS)

Anokhina, A. S.; Morozov, A. Yu.; Shakirov, Sh. R.

2009-09-01

The determinant is a very important characteristic of a linear map between vector spaces. Two generalizations of linear maps are intensively used in modern theory: linear complexes (nilpotent chains of linear maps) and nonlinear maps. The determinant of a complex and the resultant are then the corresponding generalizations of the determinant of a linear map. It turns out that these two quantities are related: the resultant of a nonlinear map is the determinant of the corresponding Koszul complex. We give an elementary introduction into these notions and relations, which will definitely play a role in the future development of theoretical physics.

Rotation number of integrable symplectic mappings of the plane

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zolkin, Timofey; Nagaitsev, Sergei; Danilov, Viatcheslav

2017-04-11

Symplectic mappings are discrete-time analogs of Hamiltonian systems. They appear in many areas of physics, including, for example, accelerators, plasma, and fluids. Integrable mappings, a subclass of symplectic mappings, are equivalent to a Twist map, with a rotation number, constant along the phase trajectory. In this letter, we propose a succinct expression to determine the rotation number and present two examples. Similar to the period of the bounded motion in Hamiltonian systems, the rotation number is the most fundamental property of integrable maps and it provides a way to analyze the phase-space dynamics.

Mapping cognitive structures of community college students engaged in basic electrostatics laboratories

NASA Astrophysics Data System (ADS)

Haggerty, Dennis Charles

Community college students need to be abstract thinkers in order to be successful in the introductory Physics curriculum. The purpose of this dissertation is to map the abstract thinking of community college Physics students. The laboratory environment was used as a vehicle for the mapping. Three laboratory experiments were encountered. One laboratory was based on the classic Piagetian task, the centripetal motion (CM) problem. The other two laboratories were introductory electrostatic Physics experiments, Resistance (RES) and Capacitance (CAP). The students performed all laboratories using the thinking-aloud technique. The researcher collected their verbal protocols using audiotapes. The audiotaped data was quantified by comparing it to a scoring matrix based on the Piagetian logical operators (Inhelder & Piaget, 1958) for abstract thinking. The students received scores for each laboratory experiment. These scores were compared to a reliable test of intellectual functioning, the Shipley Institute of Living Scale (SILS). Spearman rank correlation coefficients (SRCC) were obtained for SILS versus CM; SILS versus RES; and SILS versus CAP. Statistically significant results were obtained for SILS versus CM and SILS versus RES at the p < 0.05 level. When an outlier to the data was considered and suppressed, the SILS versus CAP was also statistically significant at the p < 0.05 level. The scoring matrix permits a bridge from the qualitative Piagetian level of cognitive development to a quantified, mapped level of cognitive development. The ability to quantify student abstract thinking in Physics education provides a means to adjust an instructional approach. This approach could lead to a proper state of Physics education.

Design and application of star map simulation system for star sensors

NASA Astrophysics Data System (ADS)

Wu, Feng; Shen, Weimin; Zhu, Xifang; Chen, Yuheng; Xu, Qinquan

2013-12-01

Modern star sensors are powerful to measure attitude automatically which assure a perfect performance of spacecrafts. They achieve very accurate attitudes by applying algorithms to process star maps obtained by the star camera mounted on them. Therefore, star maps play an important role in designing star cameras and developing procession algorithms. Furthermore, star maps supply significant supports to exam the performance of star sensors completely before their launch. However, it is not always convenient to supply abundant star maps by taking pictures of the sky. Thus, star map simulation with the aid of computer attracts a lot of interests by virtue of its low price and good convenience. A method to simulate star maps by programming and extending the function of the optical design program ZEMAX is proposed. The star map simulation system is established. Firstly, based on analyzing the working procedures of star sensors to measure attitudes and the basic method to design optical system by ZEMAX, the principle of simulating star sensor imaging is given out in detail. The theory about adding false stars and noises, and outputting maps is discussed and the corresponding approaches are proposed. Then, by external programming, the star map simulation program is designed and produced. Its user interference and operation are introduced. Applications of star map simulation method in evaluating optical system, star image extraction algorithm and star identification algorithm, and calibrating system errors are presented completely. It was proved that the proposed simulation method provides magnificent supports to the study on star sensors, and improves the performance of star sensors efficiently.

Contribution of radiation hybrids to genome mapping in domestic animals.

PubMed

Faraut, T; de Givry, S; Hitte, C; Lahbib-Mansais, Y; Morisson, M; Milan, D; Schiex, T; Servin, B; Vignal, A; Galibert, F; Yerle, M

2009-01-01

Radiation hybrid mapping has emerged in the end of the 1990 s as a successful and complementary approach to map genomes, essentially because of its ability to bridge the gaps between genetic and clone-based physical maps, but also using comparative mapping approaches, between 'gene-rich' and 'gene-poor' maps. Since its early development in human, radiation hybrid mapping played a pivotal role in the process of mapping animal genomes, especially mammalian ones. We review here all the different steps involved in radiation hybrid mapping from the constitution of panels to the construction of maps. A description of its contribution to whole genome maps with a special emphasis on domestic animals will also be presented. Finally, current applications of radiation hybrid mapping in the context of whole genome assemblies will be described. (c) 2009 S. Karger AG, Basel.

Next-Level ShakeZoning for Earthquake Hazard Definition in Nevada

NASA Astrophysics Data System (ADS)

Louie, J. N.; Savran, W. H.; Flinchum, B. A.; Dudley, C.; Prina, N.; Pullammanappallil, S.; Pancha, A.

2011-12-01

We are developing "Next-Level ShakeZoning" procedures tailored for defining earthquake hazards in Nevada. The current Federally sponsored tools- the USGS hazard maps and ShakeMap, and FEMA HAZUS- were developed as statistical summaries to match earthquake data from California, Japan, and Taiwan. The 2008 Wells and Mogul events in Nevada showed in particular that the generalized statistical approach taken by ShakeMap cannot match actual data on shaking from earthquakes in the Intermountain West, even to first order. Next-Level ShakeZoning relies on physics and geology to define earthquake shaking hazards, rather than statistics. It follows theoretical and computational developments made over the past 20 years, to capitalize on detailed and specific local data sets to more accurately model the propagation and amplification of earthquake waves through the multiple geologic basins of the Intermountain West. Excellent new data sets are now available for Las Vegas Valley. Clark County, Nevada has completed the nation's very first effort to map earthquake hazard class systematically through an entire urban area using Optim's SeisOpt° ReMi technique, which was adapted for large-scale data collection. Using the new Parcel Map in computing shaking in the Valley for scenario earthquakes is crucial for obtaining realistic predictions of ground motions. In an educational element of the project, a dozen undergraduate students have been computing 50 separate earthquake scenarios affecting Las Vegas Valley, using the Next-Level ShakeZoning process. Despite affecting only the upper 30 meters, the Vs30 geotechnical shear-velocity from the Parcel Map shows clear effects on 3-d shaking predictions computed so far at frequencies from 0.1 Hz up to 1.0 Hz. The effect of the Parcel Map on even the 0.1-Hz waves is prominent even with the large mismatch of wavelength to geotechnical depths. Amplifications and de-amplifications affected by the Parcel Map exceed a factor of two, and are highly dependent on the particular scenario. As well, Parcel Map amplification effects extend into areas not characterized in the Parcel Map. The fully 3-d Next-Level ShakeZoning scenarios show many areas of shaking amplification and de-amplification that USGS ShakeMap scenarios cannot predict. For example, the Frenchman Mountain scenario shows PGV of the two approaches within 15% of each other near the source, but upwards of 200% relative amplification or de-amplification, depending on location, throughout Las Vegas Valley.

The influence of HOPE VI neighborhood revitalization on neighborhood-based physical activity: A mixed-methods approach.

PubMed

Dulin-Keita, Akilah; Clay, Olivio; Whittaker, Shannon; Hannon, Lonnie; Adams, Ingrid K; Rogers, Michelle; Gans, Kim

2015-08-01

This study uses a mixed methods approach to 1) identify surrounding residents' perceived expectations for Housing Opportunities for People Everywhere (HOPE VI) policy on physical activity outcomes and to 2) quantitatively examine the odds of neighborhood-based physical activity pre-/post-HOPE VI in a low socioeconomic status, predominantly African American community in Birmingham, Alabama. To address aim one, we used group concept mapping which is a structured approach for data collection and analyses that produces pictures/maps of ideas. Fifty-eight residents developed statements about potential influences of HOPE VI on neighborhood-based physical activity. In the quantitative study, we examined whether these potential influences increased the odds of neighborhood walking/jogging. We computed block entry logistic regression models with a larger cohort of residents at baseline (n = 184) and six-months (n = 142, 77% retention; n = 120 for all informative variables). We examined perceived neighborhood disorder (perceived neighborhood disorder scale), walkability and aesthetics (Neighborhood Environment Walkability Scale) and HOPE VI-related community safety and safety for physical activity as predictors. During concept mapping, residents generated statements that clustered into three distinct concepts, "Increased Leisure Physical Activity," "Safe Play Areas," and "Generating Health Promoting Resources." The quantitative analyses indicated that changes in neighborhood walkability increased the odds of neighborhood-based physical activity (p = 0.04). When HOPE VI-related safety for physical activity was entered into the model, it was associated with increased odds of physical activity (p = 0.04). Walkability was no longer statistically significant. These results suggest that housing policies that create walkable neighborhoods and that improve perceptions of safety for physical activity may increase neighborhood-based physical activity. However, the longer term impacts of neighborhood-level policies on physical activity require more longitudinal evidence to determine whether increased participation in physical activity is sustained. Copyright © 2015 Elsevier Ltd. All rights reserved.

Map based navigation for autonomous underwater vehicles

DOE Office of Scientific and Technical Information (OSTI.GOV)

Tuohy, S.T.; Leonard, J.J.; Bellingham, J.G.

1995-12-31

In this work, a map based navigation algorithm is developed wherein measured geophysical properties are matched to a priori maps. The objectives is a complete algorithm applicable to a small, power-limited AUV which performs in real time to a required resolution with bounded position error. Interval B-Splines are introduced for the non-linear representation of two-dimensional geophysical parameters that have measurement uncertainty. Fine-scale position determination involves the solution of a system of nonlinear polynomial equations with interval coefficients. This system represents the complete set of possible vehicle locations and is formulated as the intersection of contours established on each map frommore » the simultaneous measurement of associated geophysical parameters. A standard filter mechanisms, based on a bounded interval error model, predicts the position of the vehicle and, therefore, screens extraneous solutions. When multiple solutions are found, a tracking mechanisms is applied until a unique vehicle location is determined.« less

LANDSAT-1 data, its use in a soil survey program

NASA Technical Reports Server (NTRS)

Westin, F. C.; Frazee, C. J.

1975-01-01

The following applications of LANDSAT imagery were investigated: assistance in recognizing soil survey boundaries, low intensity soil surveys, and preparation of a base map for publishing thematic soils maps. The following characteristics of LANDSAT imagery were tested as they apply to the recognition of soil boundaries in South Dakota and western Minnesota: synoptic views due to the large areas covered, near-orthography and lack of distortion, flexibility of selecting the proper season, data recording in four parts of the spectrum, and the use of computer compatible tapes. A low intensity soil survey of Pennington County, South Dakota was completed in 1974. Low intensity inexpensive soil surveys can provide the data needed to evaluate agricultural land for the remaining counties until detailed soil surveys are completed. In using LANDSAT imagery as a base map for publishing thematic soil maps, the first step was to prepare a mosaic with 20 LANDSAT scenes from several late spring passes in 1973.

Efficient nonparametric n -body force fields from machine learning

NASA Astrophysics Data System (ADS)

Glielmo, Aldo; Zeni, Claudio; De Vita, Alessandro

2018-05-01

We provide a definition and explicit expressions for n -body Gaussian process (GP) kernels, which can learn any interatomic interaction occurring in a physical system, up to n -body contributions, for any value of n . The series is complete, as it can be shown that the "universal approximator" squared exponential kernel can be written as a sum of n -body kernels. These recipes enable the choice of optimally efficient force models for each target system, as confirmed by extensive testing on various materials. We furthermore describe how the n -body kernels can be "mapped" on equivalent representations that provide database-size-independent predictions and are thus crucially more efficient. We explicitly carry out this mapping procedure for the first nontrivial (three-body) kernel of the series, and we show that this reproduces the GP-predicted forces with meV /Å accuracy while being orders of magnitude faster. These results pave the way to using novel force models (here named "M-FFs") that are computationally as fast as their corresponding standard parametrized n -body force fields, while retaining the nonparametric character, the ease of training and validation, and the accuracy of the best recently proposed machine-learning potentials.

Infrared differential-absorption Mueller matrix spectroscopy and neural network-based data fusion for biological aerosol standoff detection.

PubMed

Carrieri, Arthur H; Copper, Jack; Owens, David J; Roese, Erik S; Bottiger, Jerold R; Everly, Robert D; Hung, Kevin C

2010-01-20

An active spectrophotopolarimeter sensor and support system were developed for a military/civilian defense feasibility study concerning the identification and standoff detection of biological aerosols. Plumes of warfare agent surrogates gamma-irradiated Bacillus subtilis and chicken egg white albumen (analytes), Arizona road dust (terrestrial interferent), water mist (atmospheric interferent), and talcum powders (experiment controls) were dispersed inside windowless chambers and interrogated by multiple CO(2) laser beams spanning 9.1-12.0 microm wavelengths (lambda). Molecular vibration and vibration-rotation activities by the subject analyte are fundamentally strong within this "fingerprint" middle infrared spectral region. Distinct polarization-modulations of incident irradiance and backscatter radiance of tuned beams generate the Mueller matrix (M) of subject aerosol. Strings of all 15 normalized elements {M(ij)(lambda)/M(11)(lambda)}, which completely describe physical and geometric attributes of the aerosol particles, are input fields for training hybrid Kohonen self-organizing map feed-forward artificial neural networks (ANNs). The properly trained and validated ANN model performs pattern recognition and type-classification tasks via internal mappings. A typical ANN that mathematically clusters analyte, interferent, and control aerosols with nil overlap of species is illustrated, including sensitivity analysis of performance.

Toward a more complete understanding of noncovalent interactions involving aromatic rings.

PubMed

Wheeler, Steven E; Bloom, Jacob W G

2014-08-14

Noncovalent interactions involving aromatic rings, which include π-stacking interactions, anion-π interactions, and XH-π interactions, among others, are ubiquitous in chemical and biochemical systems. Despite dramatic advances in our understanding of these interactions over the past decade, many aspects of these noncovalent interactions have only recently been uncovered, with many questions remaining. We summarize our computational studies aimed at understanding the impact of substituents and heteroatoms on these noncovalent interactions. In particular, we discuss our local, direct interaction model of substituent effects in π-stacking interactions. In this model, substituent effects are dominated by electrostatic interactions of the local dipoles associated with the substituents and the electric field of the other ring. The implications of the local nature of substituent effects on π-stacking interactions in larger systems are discussed, with examples given for complexes with carbon nanotubes and a small graphene model, as well as model stacked discotic systems. We also discuss related issues involving the interpretation of electrostatic potential (ESP) maps. Although ESP maps are widely used in discussions of noncovalent interactions, they are often misinterpreted. Next, we provide an alternative explanation for the origin of anion-π interactions involving substituted benzenes and N-heterocycles, and show that these interactions are well-described by simple models based solely on charge-dipole interactions. Finally, we summarize our recent work on the physical nature of substituent effects in XH-π interactions. Together, these results paint a more complete picture of noncovalent interactions involving aromatic rings and provide a firm conceptual foundation for the rational exploitation of these interactions in a myriad of chemical contexts.

Effective Mitigation and Adaptation Strategies for Public Health Impacts of Heatwaves for Brookline, MA

NASA Astrophysics Data System (ADS)

Jalalzadeh Fard, B.; Hassanzadeh, H.; Bhatia, U.; Ganguly, A. R.

2016-12-01

Studies on urban areas show a significant increase in frequency and intensity of heatwaves over the past decades, and predict the same trend for future. Since heatwaves have been responsible for a large number of life losses, urgent adaptation and mitigation strategies are required in the policy and decision making level for a sustainable urban planning. The Sustainability and Data Sciences Laboratory at Northeastern University, under the aegis of Thriving Earth Exchange of AGU, is working with the town of Brookline to understand the potential public health impacts of anticipated heatwaves. We consider the most important social and physical factors to obtain vulnerability and exposure parameters for each census block group of the town. Utilizing remote sensing data, we locate Urban Heat Islands (UHIs) during a recent heatwave event, as the hazard parameter. We then create priority risk map using the risk framework. Our analyses show spatial correlations between the UHIs and social factors such as poverty, and physical factors such as land cover variations. Furthermore, we investigate the future heatwave frequency and intensity increases by analyzing the climate models predictions. For future changes of UHIs, land cover changes are investigated using available predictive data. Also, socioeconomic predictions are carried out to complete the futuristic models of heatwave risks. Considering plausible scenarios for Brookline, we develop different risk maps based on the vulnerability, exposure and hazard parameters. Eventually, we suggest guidelines for Heatwave Action Plans for prioritizing effective mitigation and adaptation strategies in urban planning for the town of Brookline.

A NEW LOG EVALUATION METHOD TO APPRAISE MESAVERDE RE-COMPLETION OPPORTUNITIES

DOE Office of Scientific and Technical Information (OSTI.GOV)

Albert Greer

2003-09-11

Artificial intelligence tools, fuzzy logic and neural networks were used to evaluate the potential of the behind pipe Mesaverde formation in BMG's Mancos formation wells. A fractal geostatistical mapping algorithm was also used to predict Mesaverde production. Additionally, a conventional geological study was conducted. To date one Mesaverde completion has been performed. The Janet No.3 Mesaverde completion was non-economic. Both the AI method and the geostatistical methods predicted the failure of the Janet No.3. The Gavilan No.1 in the Mesaverde was completed during the course of the study and was an extremely good well. This well was not included inmore » the statistical dataset. The AI method predicted very good production while the fractal map predicted a poor producer.« less

Optimal mapping of neural-network learning on message-passing multicomputers

NASA Technical Reports Server (NTRS)

Chu, Lon-Chan; Wah, Benjamin W.

1992-01-01

A minimization of learning-algorithm completion time is sought in the present optimal-mapping study of the learning process in multilayer feed-forward artificial neural networks (ANNs) for message-passing multicomputers. A novel approximation algorithm for mappings of this kind is derived from observations of the dominance of a parallel ANN algorithm over its communication time. Attention is given to both static and dynamic mapping schemes for systems with static and dynamic background workloads, as well as to experimental results obtained for simulated mappings on multicomputers with dynamic background workloads.

Combined use of visible, reflected infrared, and thermal infrared images for mapping Hawaiian lava flows

NASA Technical Reports Server (NTRS)

Abrams, Michael; Abbott, Elsa; Kahle, Anne

1991-01-01

The weathering of Hawaiian basalts is accompanied by chemical and physical changes of the surfaces. These changes have been mapped using remote sensing data from the visible and reflected infrared and thermal infrared wavelength regions. They are related to the physical breakdown of surface chill coats, the development and erosion of silica coatings, the oxidation of mafic minerals, and the development of vegetation cover. These effects show systematic behavior with age and can be mapped using the image data and related to relative ages of pahoehoe and aa flows. The thermal data are sensitive to silica rind development and fine structure of the scene; the reflectance data show the degree of oxidation and differentiate vegetation from aa and cinders. Together, data from the two wavelength regions show more than either separately. The combined data potentially provide a powerful tool for mapping basalt flows in arid to semiarid volcanic environments.

BACCardI--a tool for the validation of genomic assemblies, assisting genome finishing and intergenome comparison.

PubMed

Bartels, Daniela; Kespohl, Sebastian; Albaum, Stefan; Drüke, Tanja; Goesmann, Alexander; Herold, Julia; Kaiser, Olaf; Pühler, Alfred; Pfeiffer, Friedhelm; Raddatz, Günter; Stoye, Jens; Meyer, Folker; Schuster, Stephan C

2005-04-01

We provide the graphical tool BACCardI for the construction of virtual clone maps from standard assembler output files or BLAST based sequence comparisons. This new tool has been applied to numerous genome projects to solve various problems including (a) validation of whole genome shotgun assemblies, (b) support for contig ordering in the finishing phase of a genome project, and (c) intergenome comparison between related strains when only one of the strains has been sequenced and a large insert library is available for the other. The BACCardI software can seamlessly interact with various sequence assembly packages. Genomic assemblies generated from sequence information need to be validated by independent methods such as physical maps. The time-consuming task of building physical maps can be circumvented by virtual clone maps derived from read pair information of large insert libraries.

FISH-mapping of the 5S rDNA locus in chili peppers (Capsicum-Solanaceae).

PubMed

Aguilera, Patricia M; Debat, Humberto J; Scaldaferro, Marisel A; Martí, Dardo A; Grabiele, Mauro

2016-03-01

We present here the physical mapping of the 5S rDNA locus in six wild and five cultivated taxa of Capsicum by means of a genus-specific FISH probe. In all taxa, a single 5S locus per haploid genome that persistently mapped onto the short arm of a unique metacentric chromosome pair at intercalar position, was found. 5S FISH signals of almost the same size and brightness intensity were observed in all the analyzed taxa. This is the first cytological characterization of the 5S in wild taxa of Capsicum by using a genus-derived probe, and the most exhaustive and comprehensive in the chili peppers up to now. The information provided here will aid the cytomolecular characterization of pepper germplasm to evaluate variability and can be instrumental to integrate physical, genetic and genomic maps already generated in the genus.

Hyperelliptic Prym Varieties and Integrable Systems

NASA Astrophysics Data System (ADS)

Fernandes, Rui Loja; Vanhaecke, Pol

We introduce two algebraic completely integrable analogues of the Mumford systems which we call hyperelliptic Prym systems, because every hyperelliptic Prym variety appears as a fiber of their momentum map. As an application we show that the general fiber of the momentum map of the periodic Volterra lattice is an affine part of a hyperelliptic Prym variety, obtained by removing n translates of the theta divisor, and we conclude that this integrable system is algebraic completely integrable.

High Energy Physics

Science.gov Websites

Collider Physics Cosmic Frontier Cosmic Frontier Theory & Computing Detector R&D Electronic Design Theory Seminar Argonne >High Energy Physics Cosmic Frontier Theory & Computing Homepage General Cosmic Frontier Theory & Computing Group led the analysis to begin mapping dark matter. There have

A simple landslide susceptibility analysis for hazard and risk assessment in developing countries

NASA Astrophysics Data System (ADS)

Guinau, M.; Vilaplana, J. M.

2003-04-01

In recent years, a number of techniques and methodologies have been developed for mitigating natural disasters. The complexity of these methodologies and the scarcity of material and data series justify the need for simple methodologies to obtain the necessary information for minimising the effects of catastrophic natural phenomena. The work with polygonal maps using a GIS allowed us to develop a simple methodology, which was developed in an area of 473 Km2 in the Departamento de Chinandega (NW Nicaragua). This area was severely affected by a large number of landslides (mainly debris flows), triggered by the Hurricane Mitch rainfalls in October 1998. With the aid of aerial photography interpretation at 1:40.000 scale, amplified to 1:20.000, and detailed field work, a landslide map at 1:10.000 scale was constructed. The failure zones of landslides were digitized in order to obtain a failure zone digital map. A terrain unit digital map, in which a series of physical-environmental terrain factors are represented, was also used. Dividing the studied area into two zones (A and B) with homogeneous physical and environmental characteristics, allows us to develop the proposed methodology and to validate it. In zone A, the failure zone digital map is superimposed onto the terrain unit digital map to establish the relationship between the different terrain factors and the failure zones. The numerical expression of this relationship enables us to classify the terrain by its landslide susceptibility. In zone B, this numerical relationship was employed to obtain a landslide susceptibility map, obviating the need for a failure zone map. The validity of the methodology can be tested in this area by using the degree of superposition of the susceptibility map and the failure zone map. The implementation of the methodology in tropical countries with physical and environmental characteristics similar to those of the study area allows us to carry out a landslide susceptibility analysis in areas where landslide records do not exist. This analysis is essential to landslide hazard and risk assessment, which is necessary to determine the actions for mitigating landslide effects, e.g. land planning, emergency aid actions, etc.

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

ERIC Educational Resources Information Center

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…

Mapping the literature of physical therapy.

PubMed Central

Wakiji, E M

1997-01-01

Physical therapy is a fast growing profession because of the aging population, medical advances, and the public's interest in health promotion. This study is part of the Medical Library Association (MLA) Nursing and Allied Health Resources Section's project to map the allied health literature. It identifies the core journals in physical therapy by analyzing the cited references of articles in two established physical therapy journals, Physical Therapy and Archives of Physical Medicine and Rehabilitation, during the period 1991 through 1993. This bibliometric analysis also determines the extent to which these journals are covered by the primary indexing sources, Allied and Alternative Medicine (AMED), the Cumulative Index to Nursing and Allied Health Literature, EMBASE, and MEDLINE. In this study, fourteen journals were found to supply one-third of all references studied. Ninety-five journals provided an additional third of the references. MEDLINE rated the highest as the indexing tool of choice for these 109 journals. The study results can assist in collection development decisions, advise physical therapists as to the best access to their core literature, and influence database producers to increase their coverage of the literature important to physical therapy. PMID:9285129

Development of a YAC contig covering the minimal region of a CSNB1 locus in Xp11

DOE Office of Scientific and Technical Information (OSTI.GOV)

Boycott, K.M.; Gratton, K.J.; Moore, B.J.

1994-09-01

X-linked congenital stationary night blindness (CSNB1) is an eye disorder that includes impairment of night vision, reduced visual acuity and, in some cases, myopia and congenital nystagmus. Electroretinography reveals a marked reduction of the b-wave in affected individuals suggesting that X-linked CSNB is due to a molecular defect in the bipolar layer of the retina. Based on our studies of a large four generation family with X-linked CSNB, a CSNB1 locus was mapped to a 4-5 cM region at Xp11.23-Xp11.22 bounded telomerically by DXS426 and centromerically by DXS988. Using a panel of radiation and conventional somatic cell hybrids, a detailedmore » map of new and published STSs has been generated for the minimal region of CSNB1. PCR primer pairs for STSs has been generated for the minimal region of CSNB1. PCR primer pairs for twenty-five STSs, including eleven end-clones, were used to isolate YAC clones from CEPH, mega-CEPH, and X chromosome-specific YAC libraries. In total, fifty-two YACs were characterized for STS overlaps and assembled to provide a minimum of 3 Mb of physical coverage in the region between DXS426 and DXS988. Five gaps proximal to SYP are still to be closed. Our physical map suggests the following gene order: Xpter-OTAL1-GF1-DXS1011E-MG81-HUMCRAS2P-SYP-Xcen. STS analysis of the YACs revealed three subregions of the physical map which appear to be particularly susceptible to internal deletions and end-clone analysis demonstrated chimerism in six of seventeen YACs. A physical map of Xp11.23-Xp11.22 will provide a resource for the isolation of candidate genes for the X-linked CSNB gene which maps to this region.« less

Mapping of single-copy genes by TSA-FISH in the codling moth, Cydia pomonella.

PubMed

Carabajal Paladino, Leonela Z; Nguyen, Petr; Síchová, Jindra; Marec, František

2014-01-01

We work on the development of transgenic sexing strains in the codling moth, Cydia pomonella (Tortricidae), which would enable to produce male-only progeny for the population control of this pest using sterile insect technique (SIT). To facilitate this research, we have developed a number of cytogenetic and molecular tools, including a physical map of the codling moth Z chromosome using BAC-FISH (fluorescence in situ hybridization with bacterial artificial chromosome probes). However, chromosomal localization of unique, single-copy sequences such as a transgene cassette by conventional FISH remains challenging. In this study, we adapted a FISH protocol with tyramide signal amplification (TSA-FISH) for detection of single-copy genes in Lepidoptera. We tested the protocol with probes prepared from partial sequences of Z-linked genes in the codling moth. Using a modified TSA-FISH protocol we successfully mapped a partial sequence of the Acetylcholinesterase 1 (Ace-1) gene to the Z chromosome and confirmed thus its Z-linkage. A subsequent combination of BAC-FISH with BAC probes containing anticipated neighbouring Z-linked genes and TSA-FISH with the Ace-1 probe allowed the integration of Ace-1 in the physical map of the codling moth Z chromosome. We also developed a two-colour TSA-FISH protocol which enabled us simultaneous localization of two Z-linked genes, Ace-1 and Notch, to the expected regions of the Z chromosome. We showed that TSA-FISH represents a reliable technique for physical mapping of genes on chromosomes of moths and butterflies. Our results suggest that this technique can be combined with BAC-FISH and in the future used for physical localization of transgene cassettes on chromosomes of transgenic lines in the codling moth or other lepidopteran species. Furthermore, the developed protocol for two-colour TSA-FISH might become a powerful tool for synteny mapping in non-model organisms.

Mapping of single-copy genes by TSA-FISH in the codling moth, Cydia pomonella

PubMed Central

2014-01-01

Background We work on the development of transgenic sexing strains in the codling moth, Cydia pomonella (Tortricidae), which would enable to produce male-only progeny for the population control of this pest using sterile insect technique (SIT). To facilitate this research, we have developed a number of cytogenetic and molecular tools, including a physical map of the codling moth Z chromosome using BAC-FISH (fluorescence in situ hybridization with bacterial artificial chromosome probes). However, chromosomal localization of unique, single-copy sequences such as a transgene cassette by conventional FISH remains challenging. In this study, we adapted a FISH protocol with tyramide signal amplification (TSA-FISH) for detection of single-copy genes in Lepidoptera. We tested the protocol with probes prepared from partial sequences of Z-linked genes in the codling moth. Results Using a modified TSA-FISH protocol we successfully mapped a partial sequence of the Acetylcholinesterase 1 (Ace-1) gene to the Z chromosome and confirmed thus its Z-linkage. A subsequent combination of BAC-FISH with BAC probes containing anticipated neighbouring Z-linked genes and TSA-FISH with the Ace-1 probe allowed the integration of Ace-1 in the physical map of the codling moth Z chromosome. We also developed a two-colour TSA-FISH protocol which enabled us simultaneous localization of two Z-linked genes, Ace-1 and Notch, to the expected regions of the Z chromosome. Conclusions We showed that TSA-FISH represents a reliable technique for physical mapping of genes on chromosomes of moths and butterflies. Our results suggest that this technique can be combined with BAC-FISH and in the future used for physical localization of transgene cassettes on chromosomes of transgenic lines in the codling moth or other lepidopteran species. Furthermore, the developed protocol for two-colour TSA-FISH might become a powerful tool for synteny mapping in non-model organisms. PMID:25471491

Database for the Geologic Map of Upper Eocene to Holocene Volcanic and Related Rocks of the Cascade Range, Oregon

USGS Publications Warehouse

Nimz, Kathryn; Ramsey, David W.; Sherrod, David R.; Smith, James G.

2008-01-01

Since 1979, Earth scientists of the Geothermal Research Program of the U.S. Geological Survey have carried out multidisciplinary research in the Cascade Range. The goal of this research is to understand the geology, tectonics, and hydrology of the Cascades in order to characterize and quantify geothermal resource potential. A major goal of the program is compilation of a comprehensive geologic map of the entire Cascade Range that incorporates modern field studies and that has a unified and internally consistent explanation. This map is one of three in a series that shows Cascade Range geology by fitting published and unpublished mapping into a province-wide scheme of rock units distinguished by composition and age; map sheets of the Cascade Range in Washington (Smith, 1993) and California will complete the series. The complete series forms a guide to exploration and evaluation of the geothermal resources of the Cascade Range and will be useful for studies of volcano hazards, volcanology, and tectonics. This digital release contains all the information used to produce the geologic map published as U.S. Geological Survey Geologic Investigations Series I-2569 (Sherrod and Smith, 2000). The main component of this digital release is a geologic map database prepared using ArcInfo GIS. This release also contains files to view or print the geologic map and accompanying descriptive pamphlet from I-2569.

Geohydrologic systems in Kansas physical framework of the upper aquifer unit in the western interior plains aquifer system

USGS Publications Warehouse

Hansen, Cristi V.; Spinazola, Joseph M.; Underwood, E.J.; Wolf, R.J.

1992-01-01

The purpose of this Hydrologic Investigations Atlas is to provide a description of the principal geohydrologic systems in Upper Cambrian through Lower Cretaceous rocks in Kansas. This investigation was made as part of the Central Midwest Regional Aquifer-System Analysis (CMRASA). The CMRASA is one of several major investigations by the U.S. Geological Survey of regional aquifer systems in the United States. These regional investigations are designed to increase knowledge of the flow regime and hydrologic properties of major aquifer systems and to provide quantitative information for the assessment, development, and management water supplies. The CMRASA study area includes all or parts of 10 Central Midwestern States (Jorgensen and Signor, 1981), as shown on the envelope cover.This Hydrologic Investigations Atlas, which consists of a series of nine chapters, presents a description of the physical framework and the geohydrology of principal aquifers and confining systems in Kansas. Chapter D presents maps that show the areal extent, altitude and configuration of the top, and thickness of Mississippian rocks that compose the upper aquifer unit of the Western Interior Plains aquifer system in Kansas, The chapter is limited to the presentation of the physical framework of the upper aquifer unit. The interpretation of the physical framework of the upper aquifer unit is based on selected geophysical and lithologic logs and published maps of stratigraphically equivalent units. Maps indicating the thickness and the altitude and configuration of the top of the upper aquifer unit in the Western Interior Plains aquifer system have been prepared as part of a series of interrelated maps that describe the stratigraphic interval from the Precambrian basement through Lower Cretaceous rocks. A concerted effort was made to ensure that maps of each geohydrologic unit are consistent with the maps of underlying and overlying units. Chapter A of this atlas series (Wolf and others, 1990) describes the relation of principal geohydrologic systems in Kansas and presents a more detailed discussion of the methods and data used to prepare and ensure consistency among the sets of maps.

Generalized exact holographic mapping with wavelets

NASA Astrophysics Data System (ADS)

Lee, Ching Hua

2017-12-01

The idea of renormalization and scale invariance is pervasive across disciplines. It has not only drawn numerous surprising connections between physical systems under the guise of holographic duality, but has also inspired the development of wavelet theory now widely used in signal processing. Synergizing on these two developments, we describe in this paper a generalized exact holographic mapping that maps a generic N -dimensional lattice system to a (N +1 )-dimensional holographic dual, with the emergent dimension representing scale. In previous works, this was achieved via the iterations of the simplest of all unitary mappings, the Haar mapping, which fails to preserve the form of most Hamiltonians. By taking advantage of the full generality of biorthogonal wavelets, our new generalized holographic mapping framework is able to preserve the form of a large class of lattice Hamiltonians. By explicitly separating features that are fundamentally associated with the physical system from those that are basis specific, we also obtain a clearer understanding of how the resultant bulk geometry arises. For instance, the number of nonvanishing moments of the high-pass wavelet filter is revealed to be proportional to the radius of the dual anti-de Sitter space geometry. We conclude by proposing modifications to the mapping for systems with generic Fermi pockets.

Ground-survey and water-quality data for selected wetlands on or near the Lower Brule Indian Reservation in South Dakota, 2012-13

USGS Publications Warehouse

Neitzert, Kathleen M.; Thompson, Ryan F.

2015-08-20

Numerous lakes, ponds, and wetlands are located within the Lower Brule Indian Reservation. Wetlands are an important resource providing aquatic habitat for plants and animals, and acting as a natural water filtration system. Several of the wetlands on or near the reservation are of particular interest, but information on the physical and biological integrity of these wetlands was needed to provide a base-line reference when planning for future water management needs. A reconnaissance-level study of selected wetlands on and near the Lower Brule Indian Reservation was completed in 2012–13 by the U.S. Geological Survey in cooperation with the Lower Brule Sioux Tribe using ground surveys and water-quality analyses. Ground surveys of six wetland areas (Dorman Slough, Little Bend Wetlands, Miller Pond, Potter Slough, an unnamed slough, and West Brule Community wetlands) were completed to map land, water, vegetation, and man-made features of the selected wetland areas using real-time kinematic global navigation satellite systems equipment. Water samples were collected from four of the selected wetlands. Two separate waterbodies were sampled at one of the wetlands for a total of five sampling locations. Water samples were analyzed for physical properties, selected inorganics, metals, nutrients, and suspended sediment. Concentrations of calcium, sodium, and sulfate were greater at the two wetland sites fed by ground water, compared to the wetland sites fed by surface runoff.

Study of variability of permittivity and its mapping over lunar surface and subsurface using multisensors datasets

NASA Astrophysics Data System (ADS)

Calla, O. P. N.; Mathur, Shubhra; Gadri, Kishan Lal; Jangid, Monika

2016-12-01

In the present paper, permittivity maps of equatorial lunar surface are generated using brightness temperature (TB) data obtained from Microwave Radiometer (MRM) of Chang'e-1 and physical temperature (TP) data obtained from Diviner of Lunar Reconnaissance Orbiter (LRO). Here, permittivity mapping is not carried out above 60° latitudes towards the lunar poles due to large anomaly in the physical temperature obtained from the Diviner. Microwave frequencies, which are used to generate these maps are 3 GHz, 7.8 GHz, 19.35 GHz and 37 GHz. Permittivity values are simulated using TB values at these four frequencies. Here, weighted average of physical temperature obtained from Diviner are used to compute permittivity at each microwave frequencies. Longer wavelengths of microwave signals give information of more deeper layers of the lunar surface as compared to smaller wavelength. Initially, microwave emissivity is estimated using TB values from MRM and physical temperature (TP) from Diviner. From estimated emissivity the real part of permittivity (ε), is calculated using Fresnel equations. The permittivity maps of equatorial lunar surface is generated. The simulated permittivity values are normalized with respect to density for easy comparison of simulated permittivity values with the permittivity values of Apollo samples as well as with the permittivity values of Terrestrial Analogue of Lunar Soil (TALS) JSC-1A. Lower value of dielectric constant (ε‧) indicates that the corresponding lunar surface is smooth and doesn't have rough rocky terrain. Thus a future lunar astronaut can use these data to decide proper landing site for future lunar missions. The results of this paper will serve as input to future exploration of lunar surface.

Evaluation of using digital gravity field models for zoning map creation

NASA Astrophysics Data System (ADS)

Loginov, Dmitry

2018-05-01

At the present time the digital cartographic models of geophysical fields are taking a special significance into geo-physical mapping. One of the important directions to their application is the creation of zoning maps, which allow taking into account the morphology of geophysical field in the implementation automated choice of contour intervals. The purpose of this work is the comparative evaluation of various digital models in the creation of integrated gravity field zoning map. For comparison were chosen the digital model of gravity field of Russia, created by the analog map with scale of 1 : 2 500 000, and the open global model of gravity field of the Earth - WGM2012. As a result of experimental works the four integrated gravity field zoning maps were obtained with using raw and processed data on each gravity field model. The study demonstrates the possibility of open data use to create integrated zoning maps with the condition to eliminate noise component of model by processing in specialized software systems. In this case, for solving problem of contour intervals automated choice the open digital models aren't inferior to regional models of gravity field, created for individual countries. This fact allows asserting about universality and independence of integrated zoning maps creation regardless of detail of a digital cartographic model of geo-physical fields.

Surface Snow Density of East Antarctica Derived from In-Situ Observations

NASA Astrophysics Data System (ADS)

Tian, Y.; Zhang, S.; Du, W.; Chen, J.; Xie, H.; Tong, X.; Li, R.

2018-04-01

Models based on physical principles or semi-empirical parameterizations have used to compute the firn density, which is essential for the study of surface processes in the Antarctic ice sheet. However, parameterization of surface snow density is often challenged by the description of detailed local characterization. In this study we propose to generate a surface density map for East Antarctica from all the filed observations that are available. Considering that the observations are non-uniformly distributed around East Antarctica, obtained by different methods, and temporally inhomogeneous, the field observations are used to establish an initial density map with a grid size of 30 × 30 km2 in which the observations are averaged at a temporal scale of five years. We then construct an observation matrix with its columns as the map grids and rows as the temporal scale. If a site has an unknown density value for a period, we will set it to 0 in the matrix. In order to construct the main spatial and temple information of surface snow density matrix we adopt Empirical Orthogonal Function (EOF) method to decompose the observation matrix and only take first several lower-order modes, because these modes already contain most information of the observation matrix. However, there are a lot of zeros in the matrix and we solve it by using matrix completion algorithm, and then we derive the time series of surface snow density at each observation site. Finally, we can obtain the surface snow density by multiplying the modes interpolated by kriging with the corresponding amplitude of the modes. Comparative analysis have done between our surface snow density map and model results. The above details will be introduced in the paper.

Success of students in a college physics course with and without experiencing a high school course

NASA Astrophysics Data System (ADS)

Yager, Robert E.; Krajcik, Joseph S.

High school students with high ability were enrolled in a standard college physics course for each of two summers with the same professor, same course outline, same textbook, same laboratories, and the same examinations. Half of each group had completed a high school physics course; half had not. Dormitory counselors were available for assistance and support. In addition, tutors were available in the laboratories to provide any help necessary with interpretation of lectures and performances in the laboratory, and with mathematical computation. Pre- and posttest measures concerning course content and attitude were given. After the eight-week summer instruction, the students who had not completed high school physics performed as well on the final course examination; there were no differences with respect to course grade or attitude toward physics. The group that had not completed high school physics used the tutors provided far more frequently than did students who had completed the high school course. When high-ability students are enrolled in college physics with tutors made available for needed assistance, there appears to be no advantage for students to complete the standard high school physics course.

Exploring the Effects of Employing Google Docs in Collaborative Concept Mapping on Achievement, Concept Representation, and Attitudes

ERIC Educational Resources Information Center

Lin, Yu-Tzu; Chang, Chia-Hu; Hou, Huei-Tse; Wu, Ke-Chou

2016-01-01

This study investigated the effectiveness of using Google Docs in collaborative concept mapping (CCM) by comparing it with a paper-and-pencil approach. A quasi-experimental study was conducted in a physics course. The control group drew concept maps using the paper-and-pencil method and face-to-face discussion, whereas the experimental group…

9. international mouse genome conference

DOE Office of Scientific and Technical Information (OSTI.GOV)

NONE

This conference was held November 12--16, 1995 in Ann Arbor, Michigan. The purpose of this conference was to provide a multidisciplinary forum for exchange of state-of-the-art information on genetic mapping in mice. This report contains abstracts of presentations, focusing on the following areas: mutation identification; comparative mapping; informatics and complex traits; mutagenesis; gene identification and new technology; and genetic and physical mapping.

Intervention Mapping as a framework for developing an intervention at the worksite for older construction workers.

PubMed

Oude Hengel, Karen M; Joling, Catelijne I; Proper, Karin I; van der Molen, Henk F; Bongers, Paulien M

2011-01-01

The purpose of this study was to apply the Intervention Mapping approach as a framework in the development of a worksite intervention to improve the work ability of construction workers. Development of an intervention by using the Intervention Mapping approach. Construction worksite. Construction workers aged 45 years and older. According to the principles of Intervention Mapping, evidence from the literature was combined with data collected from stakeholders (e.g., construction workers, managers, providers). The Intervention Mapping approach resulted in an intervention with the following components: (1) two individual visits of a physical therapist to lower the physical workload, (2) a Rest-Break tool to improve the balance between work and recovery, and (3) two empowerment training sessions to increase the range of influence at the worksite. Application of Intervention Mapping in the development of a worksite prevention program was useful in the construction industry to obtain a positive attitude and commitment. Stakeholders could give input regarding the program components as well as provide specific leads for the practical intervention strategy. Moreover, it also gives insight in the current theoretical and empirical knowledge in the field of improving the work ability of older workers in the construction industry.

Self Consistent Bathymetric Mapping Using Sub-maps: Survey Results From the TAG Hydrothermal Structure

NASA Astrophysics Data System (ADS)

Roman, C. N.; Reves-Sohn, R.; Singh, H.; Humphris, S.

2005-12-01

The spatial resolution of microbathymetry maps created using robotic vehicles such as ROVs, AUVs and manned submersibles in the deep ocean is currently limited by the accuracy of the vehicle navigation data. Errors in the vehicle position estimate commonly exceed the ranging errors of the acoustic mapping sensor itself, which creates inconsistency in the map making process and produces artifacts that lower resolution and distort map integrity. We present a methodology for producing self-consistent maps and improving vehicle position estimation by exploiting accurate local navigation and utilizing terrain relative measurements. The complete map is broken down into individual "sub-maps'', which are generated using short term Doppler based navigation. The sub-maps are pairwise registered to constrain the vehicle position estimates by matching terrain that has been imaged multiple times. This procedure is implemented using a delayed state Kalman filter to incorporate the sub-map registrations as relative position measurements between previously visited vehicle locations. Archiving of previous positions in a filter state vector allows for continual adjustment of the sub-map locations. The terrain registration is accomplished using a two dimensional correlation and a six degree of freedom point cloud alignment method tailored to bathymetric data. This registration procedure is applicable to fully 3 dimensional complex underwater environments. The complete bathymetric map is then created from the union of all sub-maps that have been aligned in a consistent manner. The method is applied to an SM2000 multibeam survey of the TAG hydrothermal structure on the Mid-Atlantic Ridge at 26(°)N using the Jason II ROV. The survey included numerous crossing tracklines designed to test this algorithm, and the final gridded bathymetry data is sub-meter accurate. The high-resolution map has allowed for the identification of previously unrecognized fracture patterns associated with flow focusing at TAG, as well as imaging of fine-scale features such as individual sulfide talus blocks and ODP re-entry cones.

A multiagency and multijurisdictional approach to mapping the glacial deposits of the Great Lakes region in three dimensions

USGS Publications Warehouse

Berg, Richard C.; Brown, Steven E.; Thomason, Jason F.; Hasenmueller, Nancy R.; Letsinger, Sally L.; Kincare, Kevin A.; Esch, John M.; Kehew, Alan E.; Thorleifson, L. Harvey; Kozlowski, Andrew L.; Bird, Brian C.; Pavey, Richard R.; Bajc, Andy F.; Burt, Abigail K.; Fleeger, Gary M.; Carson, Eric C.

2016-01-01

The Great Lakes Geologic Mapping Coalition (GLGMC), consisting of state geological surveys from all eight Great Lakes states, the Ontario Geological Survey, and the U.S. Geological Survey, was conceived out of a societal need for unbiased and scientifically defensible geologic information on the shallow subsurface, particularly the delineation, interpretation, and viability of groundwater resources. Only a small percentage (<10%) of the region had been mapped in the subsurface, and there was recognition that no single agency had the financial, intellectual, or physical resources to conduct such a massive geologic mapping effort at a detailed scale over a wide jurisdiction. The GLGMC provides a strategy for generating financial and stakeholder support for three-dimensional (3-D) geologic mapping, pooling of physical and personnel resources, and sharing of mapping and technological expertise to characterize the thick cover of glacial sediments. Since its inception in 1997, the GLGMC partners have conducted detailed surficial and 3-D geologic mapping within all jurisdictions, and concurrent significant scientific advancements have been made to increase understanding of the history and framework of geologic processes. More importantly, scientific information has been provided to public policymakers in understandable formats, emphasis has been placed on training early-career scientists in new mapping techniques and emerging technologies, and a successful model has been developed of state/provincial and federal collaboration focused on geologic mapping, as evidenced by this program's unprecedented and long-term successful experiment of 10 geological surveys working together to address common issues.

Design of study without drugs--a Surinamese school-based drug-prevention program for adolescents.

PubMed

Ishaak, Fariel; de Vries, Nanne Karel; van der Wolf, Kees

2015-10-12

The aim of this study was to design the content and accompanying materials for a school-based program--Study without Drugs--for adolescents in junior secondary schools in Suriname based on the starting points and tasks of the fourth step of the Intervention Mapping protocol (which consists of six steps). A program based on this protocol should include a combination of theory, empirical evidence, and qualitative and quantitative research. Two surveys were conducted when designing the program. In Survey I, teachers and students were asked to complete a questionnaire to determine which school year they thought would be most appropriate for implementing a drug-prevention program for adolescents (we completed a similar survey as part of previous research). An attempt was made to identify suitable culturally sensitive elements to include in the program. In Survey II, the same teachers were asked to complete a questionnaire to determine the programs' scope, sequence, structure, and topics as well as the general didactic principles to serve as a basis for program design. After outlining the program plan, lessons, and materials, we conducted a formative pretest evaluation among teachers, students, and parents. That evaluation included measures related to the program's attractiveness, comprehensibility, and usefulness. The resulting lessons were presented to the teachers for assessment. The drug-prevention program we developed comprises 10 activities and lasts 2-2.5 months in an actual school setting. The activities take place during Dutch, biology, physical education, art, religion, and social studies lessons. We based the structure of the lessons in the program on McGuire's Persuasion Communication Model, which takes into account important didactic principles. Evaluations of the program materials and lesson plans by students, teachers, and parents were mostly positive. We believe that using the fourth step of the Intervention Mapping protocol to develop a drug-prevention intervention for adolescents has a produced promising, feasible program.

Initial Experience With Ultra High-Density Mapping of Human Right Atria.

PubMed

Bollmann, Andreas; Hilbert, Sebastian; John, Silke; Kosiuk, Jedrzej; Hindricks, Gerhard

2016-02-01

Recently, an automatic, high-resolution mapping system has been presented to accurately and quickly identify right atrial geometry and activation patterns in animals, but human data are lacking. This study aims to assess the clinical feasibility and accuracy of high-density electroanatomical mapping of various RA arrhythmias. Electroanatomical maps of the RA (35 partial and 24 complete) were created in 23 patients using a novel mini-basket catheter with 64 electrodes and automatic electrogram annotation. Median acquisition time was 6:43 minutes (0:39-23:05 minutes) with shorter times for partial (4.03 ± 4.13 minutes) than for complete maps (9.41 ± 4.92 minutes). During mapping 3,236 (710-16,306) data points were automatically annotated without manual correction. Maps obtained during sinus rhythm created geometry consistent with CT imaging and demonstrated activation originating at the middle to superior crista terminalis, while maps during CS pacing showed right atrial activation beginning at the infero-septal region. Activation patterns were consistent with cavotricuspid isthmus-dependent atrial flutter (n = 4), complex reentry tachycardia (n = 1), or ectopic atrial tachycardia (n = 2). His bundle and fractionated potentials in the slow pathway region were automatically detected in all patients. Ablation of the cavotricuspid isthmus (n = 9), the atrio-ventricular node (n = 2), atrial ectopy (n = 2), and the slow pathway (n = 3) was successfully and safely performed. RA mapping with this automatic high-density mapping system is fast, feasible, and safe. It is possible to reproducibly identify propagation of atrial activation during sinus rhythm, various tachycardias, and also complex reentrant arrhythmias. © 2015 Wiley Periodicals, Inc.

Real-Time Earthquake Intensity Estimation Using Streaming Data Analysis of Social and Physical Sensors

NASA Astrophysics Data System (ADS)

Kropivnitskaya, Yelena; Tiampo, Kristy F.; Qin, Jinhui; Bauer, Michael A.

2017-06-01

Earthquake intensity is one of the key components of the decision-making process for disaster response and emergency services. Accurate and rapid intensity calculations can help to reduce total loss and the number of casualties after an earthquake. Modern intensity assessment procedures handle a variety of information sources, which can be divided into two main categories. The first type of data is that derived from physical sensors, such as seismographs and accelerometers, while the second type consists of data obtained from social sensors, such as witness observations of the consequences of the earthquake itself. Estimation approaches using additional data sources or that combine sources from both data types tend to increase intensity uncertainty due to human factors and inadequate procedures for temporal and spatial estimation, resulting in precision errors in both time and space. Here we present a processing approach for the real-time analysis of streams of data from both source types. The physical sensor data is acquired from the U.S. Geological Survey (USGS) seismic network in California and the social sensor data is based on Twitter user observations. First, empirical relationships between tweet rate and observed Modified Mercalli Intensity (MMI) are developed using data from the M6.0 South Napa, CAF earthquake that occurred on August 24, 2014. Second, the streams of both data types are analyzed together in simulated real-time to produce one intensity map. The second implementation is based on IBM InfoSphere Streams, a cloud platform for real-time analytics of big data. To handle large processing workloads for data from various sources, it is deployed and run on a cloud-based cluster of virtual machines. We compare the quality and evolution of intensity maps from different data sources over 10-min time intervals immediately following the earthquake. Results from the joint analysis shows that it provides more complete coverage, with better accuracy and higher resolution over a larger area than either data source alone.

A comparison of two conformal mapping techniques applied to an aerobrake body

NASA Technical Reports Server (NTRS)

Hommel, Mark J.

1987-01-01

Conformal mapping is a classical technique which has been utilized for solving problems in aerodynamics and hydrodynamics. Conformal mapping has been successfully applied in the construction of grids around airfoils, engine inlets and other aircraft configurations. Conformal mapping techniques were applied to an aerobrake body having an axis of symmetry. Two different approaches were utilized: (1) Karman-Trefftz transformation; and (2) Point Wise Schwarz Christoffel transformation. In both cases, the aerobrake body was mapped onto a near circle, and a grid was generated in the mapped plane. The mapped body and grid were then mapped back into physical space and the properties of the associated grids were examined. Advantages and disadvantages of both approaches are discussed.

Geospatial tools for landscape character assessment in Cyprus

NASA Astrophysics Data System (ADS)

Symons, N. P.; Vogiatzakis, I. N.; Griffiths, G. H.; Warnock, S.; Vassou, V.; Zomeni, M.; Trigkas, V.

2013-08-01

The development of Landscape Typologies in Europe relies upon advances in geospatial tools and increasing availability of digital datasets. Landscape Character Assessment (LCA) is a technique used to classify, describe and understand the combined physical, ecological and cultural characteristics of a landscape. LCA uses a range of data sources to identify and describe areas of common character and can operate at a range of scales i.e.national and regional and local. The paper describes the steps taken to develop an island wide landscape typology for Cyprus, based on the use of GIS and remote sensing tools. The methodology involved integrating physiographical, ecological and cultural information about the Cypriot landscape. Datasets on the cultural attributes (e.g. settlement and field patterns) were not available, so they were created de novo based on information from topographical maps (for settlement dispersion and density) and medium resolution satellite imagery from Google Earth, from which a number of distinctive field patterns could be distinguished. The mapping work is carried out on two levels using a hierarchical approach. The first level at a 1:100, 000 scale has been completed resulting in a map with 17 distinct landscape types. The second level is under way with the view of producing a more detailed landscape typology at 1:50, 000 scale which will incorporate the cultural aspects of the island. This is the first time that such a typology has been produced for Cyprus and it is expected to provide an invaluable tool for landscape planning and management.

G-Consistent Subsets and Reduced Dynamical Quantum Maps

NASA Astrophysics Data System (ADS)

Ceballos, Russell R.

A quantum system which evolves in time while interacting with an external environ- ment is said to be an open quantum system (OQS), and the influence of the environment on the unperturbed unitary evolution of the system generally leads to non-unitary dynamics. This kind of open system dynamical evolution has been typically modeled by a Standard Prescription (SP) which assumes that the state of the OQS is initially uncorrelated with the environment state. It is here shown that when a minimal set of physically motivated assumptions are adopted, not only does there exist constraints on the reduced dynamics of an OQS such that this SP does not always accurately describe the possible initial cor- relations existing between the OQS and environment, but such initial correlations, and even entanglement, can be witnessed when observing a particular class of reduced state transformations termed purity extractions are observed. Furthermore, as part of a more fundamental investigation to better understand the minimal set of assumptions required to formulate well defined reduced dynamical quantum maps, it is demonstrated that there exists a one-to-one correspondence between the set of initial reduced states and the set of admissible initial system-environment composite states when G-consistency is enforced. Given the discussions surrounding the requirement of complete positivity and the reliance on the SP, the results presented here may well be found valuable for determining the ba- sic properties of reduced dynamical maps, and when restrictions on the OQS dynamics naturally emerge.

Magrit: a new thematic cartography tool

NASA Astrophysics Data System (ADS)

Viry, Matthieu; Giraud, Timothée; Lambert, Nicolas

2018-05-01

The article provides an overview of the features of the Magrit web application: a free online thematic mapping tool, presenting a strong pedagogical dimension and making possible to mobilize all the elements necessary for the realization of a thematic map. In this tool, several simple modes of representation are proposed such as proportional maps or choropleth maps. Other, more complex modes are also available such as smoothed maps and cartograms. Each map can be finalized thanks to layout and customization features (projection, scale, orientation, toponyms, etc.) and exported in vector format. Magrit is therefore a complete, light and versatile tool particularly adapted to cartography teaching at the university.

Gravitons as Embroidery on the Weave

NASA Astrophysics Data System (ADS)

Iwasaki, Junichi; Rovelli, Carlo

We investigate the physical interpretation of the loop states that appear in the loop representation of quantum gravity. By utilizing the “weave” state, which has been recently introduced as a quantum description of the microstructure of flat space, we analyze the relation between loop states and graviton states. This relation determines a linear map M from the state-space of the nonperturbative theory (loop space) into the state-space of the linearized theory (Fock space). We present an explicit form of this map, and a preliminary investigation of its properties. The existence of such a map indicates that the full nonperturbative quantum theory includes a sector that describes the same physics as (the low energy regimes of) the linearized theory, namely gravitons on flat space.

Construction and Annotation of a High Density SNP Linkage Map of the Atlantic Salmon (Salmo salar) Genome.

PubMed

Tsai, Hsin Y; Robledo, Diego; Lowe, Natalie R; Bekaert, Michael; Taggart, John B; Bron, James E; Houston, Ross D

2016-07-07

High density linkage maps are useful tools for fine-scale mapping of quantitative trait loci, and characterization of the recombination landscape of a species' genome. Genomic resources for Atlantic salmon (Salmo salar) include a well-assembled reference genome, and high density single nucleotide polymorphism (SNP) arrays. Our aim was to create a high density linkage map, and to align it with the reference genome assembly. Over 96,000 SNPs were mapped and ordered on the 29 salmon linkage groups using a pedigreed population comprising 622 fish from 60 nuclear families, all genotyped with the 'ssalar01' high density SNP array. The number of SNPs per group showed a high positive correlation with physical chromosome length (r = 0.95). While the order of markers on the genetic and physical maps was generally consistent, areas of discrepancy were identified. Approximately 6.5% of the previously unmapped reference genome sequence was assigned to chromosomes using the linkage map. Male recombination rate was lower than females across the vast majority of the genome, but with a notable peak in subtelomeric regions. Finally, using RNA-Seq data to annotate the reference genome, the mapped SNPs were categorized according to their predicted function, including annotation of ∼2500 putative nonsynonymous variants. The highest density SNP linkage map for any salmonid species has been created, annotated, and integrated with the Atlantic salmon reference genome assembly. This map highlights the marked heterochiasmy of salmon, and provides a useful resource for salmonid genetics and genomics research. Copyright © 2016 Tsai et al.

Synoptic maps of heliospheric Thomson scattering brightness from 1974-1985 as observed by the Helios photometers

NASA Technical Reports Server (NTRS)

Hick, P.; Jackson, B. V.; Schwenn, R.

1992-01-01

We display the electron Thomson scattering intensity of the inner heliosphere as observed by the zodiacal light photometers on board the Helios spacecraft in the form of synoptic maps. The technique extrapolates the brightness information from each photometer sector near the Sun and constructs a latitude/longitude map at a given solar height. These data are unique in that they give a determination of heliospheric structures out of the ecliptic above the primary region of solar wind acceleration. The spatial extent of bright, co-rotating heliospheric structures is readily observed in the data north and south of the ecliptic plane where the Helios photometer coverage is most complete. Because the technique has been used on the complete Helios data set from 1974 to 1985, we observe the change in our synoptic maps with solar cycle. Bright structures are concentrated near the heliospheric equator at solar minimum, while at solar maximum bright structures are found at far higher heliographic latitudes. A comparison of these maps with other forms of synoptic data are shown for two available intervals.

MISR L3 Global Products

Atmospheric Science Data Center

2016-10-31

Global Products The MISR Level 3 Products are global or regional maps of select parameters from the Level 2 products and ... from multiple orbits are combined to make complete Level 3 global maps at daily (D), monthly (M), quarterly (Q), and yearly (Y) time ...

Volcanism on Io: Results from Global Geologic Mapping

NASA Technical Reports Server (NTRS)

Williams, David A.; Keszthelyi, L. P.; Crown, D. A.; Geissler, P. E.; Schenk, P. M.; Yff, Jessica; Jaeger, W. L.

2010-01-01

We have completed a new 1:15,000,000 global geologic map of Jupiter's volcanic moon, Io, based on a set of 1 km/pixel combined Galileo- Voyager mosaics produced by the U.S. Geological Survey. The map was produced over the last three years using ArcGIS(TM) software, and has undergone peer-review. Here we report some of the key results from our global mapping efforts, and how these results relate to questions regarding the volcano-tectonic evolution of Io.

Echo Mapping of Active Galactic Nuclei

NASA Technical Reports Server (NTRS)

Peterson, B. M.; Horne, K.

2004-01-01

Echo mapping makes use of the intrinsic variability of the continuum source in active galactic nuclei to map out the distribution and kinematics of line-emitting gas from its light travel time-delayed response to continuum changes. Echo mapping experiments have yielded sizes for the broad line-emitting region in about three dozen AGNs. The dynamics of the line-emitting gas seem to be dominated by the gravity of the central black hole, enabling measurement of the black-hole masses in AGNs. We discuss requirements for future echo-mapping experiments that will yield the high quality velocity-delay maps of the broad-line region that are needed to determine its physical nature.

A YAC contig encompassing the chromosome 7p locus for autosomal dominant retinitis pigmentosa

DOE Office of Scientific and Technical Information (OSTI.GOV)

Inglehearn, C.F.; Keen, T.J.; Ratel, R.

1994-09-01

Retinitis pigmentosa is an inherited retinal degeneration characterized by night blindness and loss of peripheral vision, often leading to complete blindness. The autosomal dominant form (adRP) maps to at least six different loci, including the rhodopsin and peripherin/Rds genes and four loci identified only by linkage analysis on chromosomes 7p, 7q, 8cen and 19q. The 7p locus was reported by this laboratory in a large English family, with a lod score of 16.5. Several new genetic markers have been tested in the family and this locus has now been refined to an interval of approximately 1 cM between markers D7S795more » and D7S484 in the 7p13-15 region. In order to clone the gene for adRP, we have used microsatellites and STSs from the region to identify over 80 YACs, from four different libraries, which map to this interval. End clones from key YACs were isolated for the generation of additional STSs. Eleven microsatellite markers between D7S435 (distal) and D7S484 (proximal) have been ordered by a combination of both physical and genetic mapping. In this way we have now obtained a YAC contig spanning approximately 3 megabases of chromosome 7p within which the adRP gene must lie. One gene (aquaporin) and one chromosome 7 brain EST have been placed on the contig but both map distal to the region of interest. Sixteen other ESTs and three further known 7p genes mapping in the region have been excluded. We are now attempting to build a cosmid contig in the defined interval and identify further expressed sequences from both YACs and cosmids to test as candidates for the adRP gene.« less

ASPECT: A spectra clustering tool for exploration of large spectral surveys

NASA Astrophysics Data System (ADS)

in der Au, A.; Meusinger, H.; Schalldach, P. F.; Newholm, M.

2012-11-01

Context. Analysing the empirical output from large surveys is an important challenge in contemporary science. Difficulties arise, in particular, when the database is huge and the properties of the object types to be selected are poorly constrained a priori. Aims: We present the novel, semi-automated clustering tool ASPECT for analysing voluminous archives of spectra. Methods: The heart of the program is a neural network in the form of a Kohonen self-organizing map. The resulting map is designed as an icon map suitable for the inspection by eye. The visual analysis is supported by the option to blend in individual object properties such as redshift, apparent magnitude, or signal-to-noise ratio. In addition, the package provides several tools for the selection of special spectral types, e.g. local difference maps which reflect the deviations of all spectra from one given input spectrum (real or artificial). Results: ASPECT is able to produce a two-dimensional topological map of a huge number of spectra. The software package enables the user to browse and navigate through a huge data pool and helps them to gain an insight into underlying relationships between the spectra and other physical properties and to get the big picture of the entire data set. We demonstrate the capability of ASPECT by clustering the entire data pool of ~6 × 105 spectra from the Data Release 4 of the Sloan Digital Sky Survey (SDSS). To illustrate the results regarding quality and completeness we track objects from existing catalogues of quasars and carbon stars, respectively, and connect the SDSS spectra with morphological information from the GalaxyZoo project. Code is only available at the CDS via anonymous ftp to cdsarc.u-strasbg.fr (130.79.128.5) or via http://cdsarc.u-strasbg.fr/viz-bin/qcat?J/A+A/547/A115

Hans Bethe, Powering the Stars, and Nuclear Physics

Science.gov Websites

dropdown arrow Site Map A-Z Index Menu Synopsis Hans Bethe, Energy Production in Stars, and Nuclear Physics physics, built atomic weapons, and called for a halt to their proliferation. Bethe's dual legacy is one of Laboratory] from 1943 to 1946. Prior to joining the Manhattan Project, Bethe taught physics at Cornell

Anchoring Linkage Groups of the Rosa Genetic Map to Physical Chromosomes with Tyramide-FISH and EST-SNP Markers

PubMed Central

Kirov, Ilya; Van Laere, Katrijn; De Riek, Jan; De Keyser, Ellen; Van Roy, Nadine; Khrustaleva, Ludmila

2014-01-01

In order to anchor Rosa linkage groups to physical chromosomes, a combination of the Tyramide-FISH technology and the modern molecular marker system based on High Resolution Melting (HRM) is an efficient approach. Although, Tyramide-FISH is a very promising technique for the visualization of short DNA probes, it is very challenging for plant species with small chromosomes such as Rosa. In this study, we successfully applied the Tyramide-FISH technique for Rosa and compared different detection systems. An indirect detection system exploiting biotinylated tyramides was shown to be the most suitable technique for reliable signal detection. Three gene fragments with a size of 1100 pb–1700 bp (Phenylalanine Ammonia Lyase, Pyrroline-5-Carboxylate Synthase and Orcinol O-Methyl Transferase) have been physically mapped on chromosomes 7, 4 and 1, respectively, of Rosa wichurana. The signal frequency was between 25% and 40%. HRM markers of these 3 gene fragments were used to include the gene fragments on the existing genetic linkage map of Rosa wichurana. As a result, three linkage groups could be anchored to their physical chromosomes. The information was used to check for synteny between the Rosa chromosomes and Fragaria. PMID:24755945

Fine Structure Genetic and Physical Map of the Gene 3 to 10 Region of the Bacteriophage P22 Chromosome

PubMed Central

Casjens, S.; Eppler, K.; Sampson, L.; Parr, R.; Wyckoff, E.

1991-01-01

The mechanism by which dsDNA is packaged by viruses is not yet understood in any system. Bacteriophage P22 has been a productive system in which to study the molecular genetics of virus particle assembly and DNA packaging. Only five phage encoded proteins, the products of genes 3, 2, 1, 8 and 5, are required for packaging the virus chromosome inside the coat protein shell. We report here the construction of a detailed genetic and physical map of these genes, the neighboring gene 4 and a portion of gene 10, in which 289 conditional lethal amber, opal, temperature sensitive and cold sensitive mutations are mapped into 44 small (several hundred base pair) intervals of known sequence. Knowledge of missense mutant phenotypes and information on the location of these mutations allows us to begin the assignment of partial protein functions to portions of these genes. The map and mapping strains will be of use in the further genetic dissection of the P22 DNA packaging and prohead assembly processes. PMID:2029965

Classifying galaxy spectra at 0.5 < z < 1 with self-organizing maps

NASA Astrophysics Data System (ADS)

Rahmani, S.; Teimoorinia, H.; Barmby, P.

2018-05-01

The spectrum of a galaxy contains information about its physical properties. Classifying spectra using templates helps elucidate the nature of a galaxy's energy sources. In this paper, we investigate the use of self-organizing maps in classifying galaxy spectra against templates. We trained semi-supervised self-organizing map networks using a set of templates covering the wavelength range from far ultraviolet to near infrared. The trained networks were used to classify the spectra of a sample of 142 galaxies with 0.5 < z < 1 and the results compared to classifications performed using K-means clustering, a supervised neural network, and chi-squared minimization. Spectra corresponding to quiescent galaxies were more likely to be classified similarly by all methods while starburst spectra showed more variability. Compared to classification using chi-squared minimization or the supervised neural network, the galaxies classed together by the self-organizing map had more similar spectra. The class ordering provided by the one-dimensional self-organizing maps corresponds to an ordering in physical properties, a potentially important feature for the exploration of large datasets.

Destruction of the Last Good Magnetic Surface in Diii-D Usn with Elms and C-Coils Shot 115467 due to Generalized Asymmetries Using Maps

NASA Astrophysics Data System (ADS)

Herrera, A.; Ali, H.; Punjabi, A.

2004-11-01

The unperturbed magnetic topology of DIII-D USN shot 115467 in the absence of ELMs and C-coils is described by the symmetric simple map (SSM) with the map parameter k=0.2623. For this k, the last good surface passes through x=0 and y=0.9995, q_edge=6.48 if six iterations of the SSM are taken to be equivalent to a single toroidal circuit of DIII-D, and the q_edge equals the q_edge in the DIII-D for shot 115467 [1]. The map parameter k represents the effects of the toroidal asymmetries. We study the changes in the last good surface and its destruction as the map parameter k is increased. This work is supported by NASA SHARP program and DE-FG02-02ER54673. [1] H. Ali, A. Punjabi, A. Boozer, and T. Evans, presented at the 31st European Physical Society Plasma Physics Meeting, London, UK, June 29, 2004, paper P2-172.

Completeness and Reliability of Location Data Collected on the Web: Assessing the Quality of Self-Reported Locations in an Internet Sample of Men Who Have Sex With Men.

PubMed

Vaughan, Adam S; Kramer, Michael R; Cooper, Hannah Lf; Rosenberg, Eli S; Sullivan, Patrick S

2016-06-09

Place is critical to our understanding of human immunodeficiency virus (HIV) infections among men who have sex with men (MSM) in the United States. However, within the scientific literature, place is almost always represented by residential location, suggesting a fundamental assumption of equivalency between neighborhood of residence, place of risk, and place of prevention. However, the locations of behaviors among MSM show significant spatial variation, and theory has posited the importance of nonresidential contextual exposures. This focus on residential locations has been at least partially necessitated by the difficulties in collecting detailed geolocated data required to explore nonresidential locations. Using a Web-based map tool to collect locations, which may be relevant to the daily lives and health behaviors of MSM, this study examines the completeness and reliability of the collected data. MSM were recruited on the Web and completed a Web-based survey. Within this survey, men used a map tool embedded within a question to indicate their homes and multiple nonresidential locations, including those representing work, sex, socialization, physician, and others. We assessed data quality by examining data completeness and reliability. We used logistic regression to identify demographic, contextual, and location-specific predictors of answering all eligible map questions and answering specific map questions. We assessed data reliability by comparing selected locations with other participant-reported data. Of 247 men completing the survey, 167 (67.6%) answered the entire set of eligible map questions. Most participants (>80%) answered specific map questions, with sex locations being the least reported (80.6%). Participants with no college education were less likely than those with a college education to answer all map questions (prevalence ratio, 0.4; 95% CI, 0.2-0.8). Participants who reported sex at their partner's home were less likely to indicate the location of that sex (prevalence ratio, 0.8; 95% CI, 0.7-1.0). Overall, 83% of participants placed their home's location within the boundaries of their reported residential ZIP code. Of locations having a specific text description, the median distance between the participant-selected location and the location determined using the specific text description was 0.29 miles (25th and 75th percentiles, 0.06-0.88). Using this Web-based map tool, this Web-based sample of MSM was generally willing and able to provide accurate data regarding both home and nonresidential locations. This tool provides a mechanism to collect data that can be used in more nuanced studies of place and sexual risk and preventive behaviors of MSM.

The Small Body Mapping Tool (SBMT) for Accessing, Visualizing, and Analyzing Spacecraft Data in Three Dimensions

NASA Astrophysics Data System (ADS)

Barnouin, O. S.; Ernst, C. M.; Daly, R. T.

2018-04-01

The free, publicly available Small Body Mapping Tool (SBMT) developed at the Johns Hopkins University Applied Physics Laboratory is a powerful, easy-to-use tool for accessing and analyzing data from small bodies.

Effects of a Story Map on Accelerated Reader Postreading Test Scores in Students with High-Functioning Autism

ERIC Educational Resources Information Center

Stringfield, Suzanne Griggs; Luscre, Deanna; Gast, David L.

2011-01-01

In this study, three elementary-aged boys with high-functioning autism (HFA) were taught to use a graphic organizer called a Story Map as a postreading tool during language arts instruction. Students learned to accurately complete the Story Map. The effect of the intervention on story recall was assessed within the context of a multiple-baseline…

Subsystem functional and the missing ingredient of confinement physics in density functionals.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Armiento, Rickard Roberto; Mattsson, Ann Elisabet; Hao, Feng

2010-08-01

The subsystem functional scheme is a promising approach recently proposed for constructing exchange-correlation density functionals. In this scheme, the physics in each part of real materials is described by mapping to a characteristic model system. The 'confinement physics,' an essential physical ingredient that has been left out in present functionals, is studied by employing the harmonic-oscillator (HO) gas model. By performing the potential {yields} density and the density {yields} exchange energy per particle mappings based on two model systems characterizing the physics in the interior (uniform electron-gas model) and surface regions (Airy gas model) of materials for the HO gases,more » we show that the confinement physics emerges when only the lowest subband of the HO gas is occupied by electrons. We examine the approximations of the exchange energy by several state-of-the-art functionals for the HO gas, and none of them produces adequate accuracy in the confinement dominated cases. A generic functional that incorporates the description of the confinement physics is needed.« less

A semester-long soil mapping project for an undergraduate pedology course

NASA Astrophysics Data System (ADS)

Brown, David J.

2015-04-01

Most students taking a pedology course will never work as soil mappers. But many will use soil maps at some point in their careers. At Montana State University, students spent 3 "lab" hours a week, complementing two lectures a week, in the field learning how to study soils literally from the ground up. The only prerequisites for enrollment were completion of an introductory soil science class and 3rd year standing at the university. The area to be mapped, just a km from campus, included a steep mountain backslope, and a complex footslope-toeslope area with diverse soils. Students were divided into teams of 3-4, with approximately 40 students altogether split over two sections that overlapped in the field by one hour. In the first lab session, groups completed a very basic description of just one soil profile. In subsequent weeks, they rotated through multiple pits excavated in a small area, and expanded their soil profile descriptions and interpretations. As students developed proficiency, they were assigned more dispersed locations to study, working for the most part independently as I hiked between pits. Throughout this process, every pit was geolocated using a GPS unit, and every profile description was copied and retained in a designated class file. Student groups delineated map units using stereo air photography, then used these delineations to guide the selection of their final locations to describe. At the end of the course, groups used all of the combined and georeferenced profile descriptions to construct a soil map of the study area complete with map unit descriptions. Most students struggled to make sense of the substantial variability within their map units, but through this struggle -- and their semester of field work -- they gained an appreciation for the value and limitations of a soil map that could not be obtained from even the most entertaining lecture. Both the class and particularly the field sessions received consistently high student reviews during the four years I had students map soils at Montanta State University.

Error Checking and Graphical Representation of Multiple–Complete–Digest (MCD) Restriction-Fragment Maps

PubMed Central

Thayer, Edward C.; Olson, Maynard V.; Karp, Richard M.

1999-01-01

Genetic and physical maps display the relative positions of objects or markers occurring within a target DNA molecule. In constructing maps, the primary objective is to determine the ordering of these objects. A further objective is to assign a coordinate to each object, indicating its distance from a reference end of the target molecule. This paper describes a computational method and a body of software for assigning coordinates to map objects, given a solution or partial solution to the ordering problem. We describe our method in the context of multiple–complete–digest (MCD) mapping, but it should be applicable to a variety of other mapping problems. Because of errors in the data or insufficient clone coverage to uniquely identify the true ordering of the map objects, a partial ordering is typically the best one can hope for. Once a partial ordering has been established, one often seeks to overlay a metric along the map to assess the distances between the map objects. This problem often proves intractable because of data errors such as erroneous local length measurements (e.g., large clone lengths on low-resolution physical maps). We present a solution to the coordinate assignment problem for MCD restriction-fragment mapping, in which a coordinated set of single-enzyme restriction maps are simultaneously constructed. We show that the coordinate assignment problem can be expressed as the solution of a system of linear constraints. If the linear system is free of inconsistencies, it can be solved using the standard Bellman–Ford algorithm. In the more typical case where the system is inconsistent, our program perturbs it to find a new consistent system of linear constraints, close to those of the given inconsistent system, using a modified Bellman–Ford algorithm. Examples are provided of simple map inconsistencies and the methods by which our program detects candidate data errors and directs the user to potential suspect regions of the map. PMID:9927487

Geologic Mapping of Ascraeus Mons, Mars

NASA Technical Reports Server (NTRS)

Mohr, K. J.; Williams, D. A.; Garry, W. B.

2016-01-01

Ascraeus Mons (AM) is the northeastern most large shield volcano residing in the Tharsis province on Mars. We are funded by NASA's Mars Data Analysis Program to complete a digital geologic map based on the mapping style. Previous mapping of a limited area of these volcanoes using HRSC images (13-25 m/pixel) revealed a diverse distribution of volcanic landforms within the calderas, along the flanks, rift aprons, and surrounding plains. The general scientific objectives for which this mapping is based is to show the different lava flow morphologies across AM to better understand the evolution and geologic history.

Solving a Higgs optimization problem with quantum annealing for machine learning.

PubMed

Mott, Alex; Job, Joshua; Vlimant, Jean-Roch; Lidar, Daniel; Spiropulu, Maria

2017-10-18

The discovery of Higgs-boson decays in a background of standard-model processes was assisted by machine learning methods. The classifiers used to separate signals such as these from background are trained using highly unerring but not completely perfect simulations of the physical processes involved, often resulting in incorrect labelling of background processes or signals (label noise) and systematic errors. Here we use quantum and classical annealing (probabilistic techniques for approximating the global maximum or minimum of a given function) to solve a Higgs-signal-versus-background machine learning optimization problem, mapped to a problem of finding the ground state of a corresponding Ising spin model. We build a set of weak classifiers based on the kinematic observables of the Higgs decay photons, which we then use to construct a strong classifier. This strong classifier is highly resilient against overtraining and against errors in the correlations of the physical observables in the training data. We show that the resulting quantum and classical annealing-based classifier systems perform comparably to the state-of-the-art machine learning methods that are currently used in particle physics. However, in contrast to these methods, the annealing-based classifiers are simple functions of directly interpretable experimental parameters with clear physical meaning. The annealer-trained classifiers use the excited states in the vicinity of the ground state and demonstrate some advantage over traditional machine learning methods for small training datasets. Given the relative simplicity of the algorithm and its robustness to error, this technique may find application in other areas of experimental particle physics, such as real-time decision making in event-selection problems and classification in neutrino physics.

Solving a Higgs optimization problem with quantum annealing for machine learning

NASA Astrophysics Data System (ADS)

Mott, Alex; Job, Joshua; Vlimant, Jean-Roch; Lidar, Daniel; Spiropulu, Maria

2017-10-01

The discovery of Higgs-boson decays in a background of standard-model processes was assisted by machine learning methods. The classifiers used to separate signals such as these from background are trained using highly unerring but not completely perfect simulations of the physical processes involved, often resulting in incorrect labelling of background processes or signals (label noise) and systematic errors. Here we use quantum and classical annealing (probabilistic techniques for approximating the global maximum or minimum of a given function) to solve a Higgs-signal-versus-background machine learning optimization problem, mapped to a problem of finding the ground state of a corresponding Ising spin model. We build a set of weak classifiers based on the kinematic observables of the Higgs decay photons, which we then use to construct a strong classifier. This strong classifier is highly resilient against overtraining and against errors in the correlations of the physical observables in the training data. We show that the resulting quantum and classical annealing-based classifier systems perform comparably to the state-of-the-art machine learning methods that are currently used in particle physics. However, in contrast to these methods, the annealing-based classifiers are simple functions of directly interpretable experimental parameters with clear physical meaning. The annealer-trained classifiers use the excited states in the vicinity of the ground state and demonstrate some advantage over traditional machine learning methods for small training datasets. Given the relative simplicity of the algorithm and its robustness to error, this technique may find application in other areas of experimental particle physics, such as real-time decision making in event-selection problems and classification in neutrino physics.

High-throughput physical mapping of chromosomes using automated in situ hybridization.

PubMed

George, Phillip; Sharakhova, Maria V; Sharakhov, Igor V

2012-06-28

Projects to obtain whole-genome sequences for 10,000 vertebrate species and for 5,000 insect and related arthropod species are expected to take place over the next 5 years. For example, the sequencing of the genomes for 15 malaria mosquitospecies is currently being done using an Illumina platform. This Anopheles species cluster includes both vectors and non-vectors of malaria. When the genome assemblies become available, researchers will have the unique opportunity to perform comparative analysis for inferring evolutionary changes relevant to vector ability. However, it has proven difficult to use next-generation sequencing reads to generate high-quality de novo genome assemblies. Moreover, the existing genome assemblies for Anopheles gambiae, although obtained using the Sanger method, are gapped or fragmented. Success of comparative genomic analyses will be limited if researchers deal with numerous sequencing contigs, rather than with chromosome-based genome assemblies. Fragmented, unmapped sequences create problems for genomic analyses because: (i) unidentified gaps cause incorrect or incomplete annotation of genomic sequences; (ii) unmapped sequences lead to confusion between paralogous genes and genes from different haplotypes; and (iii) the lack of chromosome assignment and orientation of the sequencing contigs does not allow for reconstructing rearrangement phylogeny and studying chromosome evolution. Developing high-resolution physical maps for species with newly sequenced genomes is a timely and cost-effective investment that will facilitate genome annotation, evolutionary analysis, and re-sequencing of individual genomes from natural populations. Here, we present innovative approaches to chromosome preparation, fluorescent in situ hybridization (FISH), and imaging that facilitate rapid development of physical maps. Using An. gambiae as an example, we demonstrate that the development of physical chromosome maps can potentially improve genome assemblies and, thus, the quality of genomic analyses. First, we use a high-pressure method to prepare polytene chromosome spreads. This method, originally developed for Drosophila, allows the user to visualize more details on chromosomes than the regular squashing technique. Second, a fully automated, front-end system for FISH is used for high-throughput physical genome mapping. The automated slide staining system runs multiple assays simultaneously and dramatically reduces hands-on time. Third, an automatic fluorescent imaging system, which includes a motorized slide stage, automatically scans and photographs labeled chromosomes after FISH. This system is especially useful for identifying and visualizing multiple chromosomal plates on the same slide. In addition, the scanning process captures a more uniform FISH result. Overall, the automated high-throughput physical mapping protocol is more efficient than a standard manual protocol.

Mid-Life Nuances and Negotiations: Narrative Maps and the Social Construction of Mid-Life in Sport and Physical Activity

ERIC Educational Resources Information Center

Partington, Elizabeth; Partington, Sarah; Fishwick, Lesley; Allin, Linda

2005-01-01

This paper adopts a narrative perspective on the study of mid-life experiences in sport. Different types of stories about sporting mid-life are identified and discussed. Drawing upon the concept of narrative mapping, the potential of these stories to serve as narrative maps for those approaching mid-life is considered. Data from an interview study…

A High-throughput AFLP-based Method for Constructing Integrated Genetic and Physical Maps: Progress Toward a Sorghum Genome Map

PubMed Central

Klein, Patricia E.; Klein, Robert R.; Cartinhour, Samuel W.; Ulanch, Paul E.; Dong, Jianmin; Obert, Jacque A.; Morishige, Daryl T.; Schlueter, Shannon D.; Childs, Kevin L.; Ale, Melissa; Mullet, John E.

2000-01-01

Sorghum is an important target for plant genomic mapping because of its adaptation to harsh environments, diverse germplasm collection, and value for comparing the genomes of grass species such as corn and rice. The construction of an integrated genetic and physical map of the sorghum genome (750 Mbp) is a primary goal of our sorghum genome project. To help accomplish this task, we have developed a new high-throughput PCR-based method for building BAC contigs and locating BAC clones on the sorghum genetic map. This task involved pooling 24,576 sorghum BAC clones (∼4× genome equivalents) in six different matrices to create 184 pools of BAC DNA. DNA fragments from each pool were amplified using amplified fragment length polymorphism (AFLP) technology, resolved on a LI-COR dual-dye DNA sequencing system, and analyzed using Bionumerics software. On average, each set of AFLP primers amplified 28 single-copy DNA markers that were useful for identifying overlapping BAC clones. Data from 32 different AFLP primer combinations identified ∼2400 BACs and ordered ∼700 BAC contigs. Analysis of a sorghum RIL mapping population using the same primer pairs located ∼200 of the BAC contigs on the sorghum genetic map. Restriction endonuclease fingerprinting of the entire collection of sorghum BAC clones was applied to test and extend the contigs constructed using this PCR-based methodology. Analysis of the fingerprint data allowed for the identification of 3366 contigs each containing an average of 5 BACs. BACs in ∼65% of the contigs aligned by AFLP analysis had sufficient overlap to be confirmed by DNA fingerprint analysis. In addition, 30% of the overlapping BACs aligned by AFLP analysis provided information for merging contigs and singletons that could not be joined using fingerprint data alone. Thus, the combination of fingerprinting and AFLP-based contig assembly and mapping provides a reliable, high-throughput method for building an integrated genetic and physical map of the sorghum genome. [The sequence data described in this paper have been submitted to the GenBank data library under accession no. AF218263.] PMID:10854411

Strong Effects of Vs30 Heterogeneity on Physics-Based Scenario Ground-Shaking Computations

NASA Astrophysics Data System (ADS)

Louie, J. N.; Pullammanappallil, S. K.

2014-12-01

Hazard mapping and building codes worldwide use the vertically time-averaged shear-wave velocity between the surface and 30 meters depth, Vs30, as one predictor of earthquake ground shaking. Intensive field campaigns a decade ago in Reno, Los Angeles, and Las Vegas measured urban Vs30 transects with 0.3-km spacing. The Clark County, Nevada, Parcel Map includes urban Las Vegas and comprises over 10,000 site measurements over 1500 km2, completed in 2010. All of these data demonstrate fractal spatial statistics, with a fractal dimension of 1.5-1.8 at scale lengths from 0.5 km to 50 km. Vs measurements in boreholes up to 400 m deep show very similar statistics at 1 m to 200 m lengths. When included in physics-based earthquake-scenario ground-shaking computations, the highly heterogeneous Vs30 maps exhibit unexpectedly strong influence. In sensitivity tests (image below), low-frequency computations at 0.1 Hz display amplifications (as well as de-amplifications) of 20% due solely to Vs30. In 0.5-1.0 Hz computations, the amplifications are a factor of two or more. At 0.5 Hz and higher frequencies the amplifications can be larger than what the 1-d Building Code equations would predict from the Vs30 variations. Vs30 heterogeneities at one location have strong influence on amplifications at other locations, stretching out in the predominant direction of wave propagation for that scenario. The sensitivity tests show that shaking and amplifications are highly scenario-dependent. Animations of computed ground motions and how they evolve with time suggest that the fractal Vs30 variance acts to trap wave energy and increases the duration of shaking. Validations of the computations against recorded ground motions, possible in Las Vegas Valley due to the measurements of the Clark County Parcel Map, show that ground motion levels and amplifications match, while recorded shaking has longer duration than computed shaking. Several mechanisms may explain the amplification and increased duration of shaking in the presence of heterogeneous spatial distributions of Vs: conservation of wave energy across velocity changes; geometric focusing of waves by low-velocity lenses; vertical resonance and trapping; horizontal resonance and trapping; and multiple conversion of P- to S-wave energy.

KSC-2012-1522

NASA Image and Video Library

2012-02-17

VANDENBERG AIR FORCE BASE, Calif. – Inside an environmental enclosure at Vandenberg Air Force Base's processing facility in California, NASA's Nuclear Spectroscopic Telescope Array, or NuSTAR, secured inside a turnover rotation fixture, moves toward interface with its Orbital Sciences Pegasus XL rocket. The uniting of the spacecraft with the rocket is a major milestone in prelaunch preparations. After processing of the rocket and spacecraft are complete, they will be flown on Orbital's L-1011 carrier aircraft from Vandenberg to the Ronald Reagan Ballistic Missile Defense Test Site on the Pacific Ocean’s Kwajalein Atoll for launch. The high-energy x-ray telescope will conduct a census of black holes, map radioactive material in young supernovae remnants, and study the origins of cosmic rays and the extreme physics around collapsed stars. For more information, visit http://www.nasa.gov/nustar. Photo credit: NASA/Randy Beaudoin, VAFB

KSC-2012-1076

NASA Image and Video Library

2012-01-18

VANDENBERG AIR FORCE BASE, Calif. -- Processing and integration of the three stages comprising an Orbital Sciences Corp. Pegasus rocket are complete in processing facility 1555 at Vandenberg Air Force Base (VAFB) in California. The rocket is being prepared to launch NASA's Nuclear Spectroscopic Telescope Array (NuSTAR) into space. After the rocket and spacecraft are processed at Vandenberg, they will be flown on the Orbital Sciences' L-1011 carrier aircraft to the Ronald Reagan Ballistic Missile Defense Test Site at the Pacific Ocean's Kwajalein Atoll for launch, targeted for no earlier than March 14. The high-energy x-ray telescope will conduct a census for black holes, map radioactive material in young supernovae remnants, and study the origins of cosmic rays and the extreme physics around collapsed stars. For more information, visit http://www.nasa.gov/nustar. Photo credit: NASA/Randy Beaudoin, VAFB