Sample records for ld map comparison

  1. A Review of Story Mapping Instruction for Secondary Students with LD

    ERIC Educational Resources Information Center

    Boon, Richard T.; Paal, Michael; Hintz, Anna-Maria; Cornelius-Freyre, Melissa

    2015-01-01

    The purpose of this article is to provide a review on the effectiveness of story mapping to improve the reading comprehension skills of middle and high school (Grades 6-12) students with learning disabilities (LD). An extensive review of the special education research-base revealed twelve (N = 12) story mapping intervention studies that met our…

  2. LD2SNPing: linkage disequilibrium plotter and RFLP enzyme mining for tag SNPs

    PubMed Central

    Chang, Hsueh-Wei; Chuang, Li-Yeh; Chang, Yan-Jhu; Cheng, Yu-Huei; Hung, Yu-Chen; Chen, Hsiang-Chi; Yang, Cheng-Hong

    2009-01-01

    Background Linkage disequilibrium (LD) mapping is commonly used to evaluate markers for genome-wide association studies. Most types of LD software focus strictly on LD analysis and visualization, but lack supporting services for genotyping. Results We developed a freeware called LD2SNPing, which provides a complete package of mining tools for genotyping and LD analysis environments. The software provides SNP ID- and gene-centric online retrievals for SNP information and tag SNP selection from dbSNP/NCBI and HapMap, respectively. Restriction fragment length polymorphism (RFLP) enzyme information for SNP genotype is available to all SNP IDs and tag SNPs. Single and multiple SNP inputs are possible in order to perform LD analysis by online retrieval from HapMap and NCBI. An LD statistics section provides D, D', r2, δQ, ρ, and the P values of the Hardy-Weinberg Equilibrium for each SNP marker, and Chi-square and likelihood-ratio tests for the pair-wise association of two SNPs in LD calculation. Finally, 2D and 3D plots, as well as plain-text output of the results, can be selected. Conclusion LD2SNPing thus provides a novel visualization environment for multiple SNP input, which facilitates SNP association studies. The software, user manual, and tutorial are freely available at . PMID:19500380

  3. Comparison of the Performance of College Students Classified as ADHD, LD, and LD/ADHD in Foreign Language Courses

    ERIC Educational Resources Information Center

    Sparks, Richard L.; Javorsky, James; Philips, Lois

    2005-01-01

    In this study, college students classified as having attention deficit hyperactivity disorder (ADHD) who had fulfilled the foreign language (FL) requirement were compared with students classified as learning disabled (LD) or both LD and ADHD who had either substituted courses for the college FL requirement petition or had passed FL courses…

  4. The linkage disequilibrium maps of three human chromosomes across four populations reflect their demographic history and a common underlying recombination pattern

    PubMed Central

    De La Vega, Francisco M.; Isaac, Hadar; Collins, Andrew; Scafe, Charles R.; Halldórsson, Bjarni V.; Su, Xiaoping; Lippert, Ross A.; Wang, Yu; Laig-Webster, Marion; Koehler, Ryan T.; Ziegle, Janet S.; Wogan, Lewis T.; Stevens, Junko F.; Leinen, Kyle M.; Olson, Sheri J.; Guegler, Karl J.; You, Xiaoqing; Xu, Lily H.; Hemken, Heinz G.; Kalush, Francis; Itakura, Mitsuo; Zheng, Yi; de Thé, Guy; O'Brien, Stephen J.; Clark, Andrew G.; Istrail, Sorin; Hunkapiller, Michael W.; Spier, Eugene G.; Gilbert, Dennis A.

    2005-01-01

    The extent and patterns of linkage disequilibrium (LD) determine the feasibility of association studies to map genes that underlie complex traits. Here we present a comparison of the patterns of LD across four major human populations (African-American, Caucasian, Chinese, and Japanese) with a high-resolution single-nucleotide polymorphism (SNP) map covering almost the entire length of chromosomes 6, 21, and 22. We constructed metric LD maps formulated such that the units measure the extent of useful LD for association mapping. LD reaches almost twice as far in chromosome 6 as in chromosomes 21 or 22, in agreement with their differences in recombination rates. By all measures used, out-of-Africa populations showed over a third more LD than African-Americans, highlighting the role of the population's demography in shaping the patterns of LD. Despite those differences, the long-range contour of the LD maps is remarkably similar across the four populations, presumably reflecting common localization of recombination hot spots. Our results have practical implications for the rational design and selection of SNPs for disease association studies. PMID:15781572

  5. Developing the Concept of Perimeter and Area in Students with Learning Disabilities (LD)

    ERIC Educational Resources Information Center

    Kozulin, Alex; Kazaz, Sigalit

    2017-01-01

    The present research is aimed at developing an educational program effective for the development of the concepts of perimeter and area in students with LD and testing this program. The study combined action research with quasi-experimental design involving experimental (LD) and comparison (non-LD) groups. The intervention program consisted of 12…

  6. The Social Acceptance of Secondary School Students with Learning Disabilities (LD)

    ERIC Educational Resources Information Center

    Lorger, Teja; Schmidt, Majda; Vukman, Karin Bakracevic

    2015-01-01

    This paper aims to shed light on the level of social acceptance among students with learning disabilities (LD) in various secondary school vocational programs in comparison with their peers without disabilities. Our findings are based on an empirical study that comprised 417 students, of whom 85 were students with LD. Based on sociometric analyses…

  7. Construction of a transfer vector for a clonal isolate of LdNPV

    Treesearch

    Shivanand T. Hiremath; Martha Fikes; Audrey Ichida

    1991-01-01

    Deoxyribonucleic acid from a clonal isolate of LdNPV (CI A2-1), obtained by in vivo cloning procedures, was used to construct genomic libraries in phage (lamda Gem 11) and cosmid (pHC79) vectors. Overlapping clones were selected to generate a restriction enzyme map. The restriction enzyme map, covering about 85% of the CI A2-1 genome, was determined...

  8. Mapping of PARK2 and PACRG overlapping regulatory region reveals LD structure and functional variants in association with leprosy in unrelated indian population groups.

    PubMed

    Chopra, Rupali; Ali, Shafat; Srivastava, Amit K; Aggarwal, Shweta; Kumar, Bhupender; Manvati, Siddharth; Kalaiarasan, Ponnusamy; Jena, Mamta; Garg, Vijay K; Bhattacharya, Sambit N; Bamezai, Rameshwar N K

    2013-01-01

    Leprosy is a chronic infectious disease caused by Mycobacterium Leprae, where the host genetic background plays an important role toward the disease pathogenesis. Various studies have identified a number of human genes in association with leprosy or its clinical forms. However, non-replication of results has hinted at the heterogeneity among associations between different population groups, which could be due to differently evolved LD structures and differential frequencies of SNPs within the studied regions of the genome. A need for systematic and saturated mapping of the associated regions with the disease is warranted to unravel the observed heterogeneity in different populations. Mapping of the PARK2 and PACRG gene regulatory region with 96 SNPs, with a resolution of 1 SNP per 1 Kb for PARK2 gene regulatory region in a North Indian population, showed an involvement of 11 SNPs in determining the susceptibility towards leprosy. The association was replicated in a geographically distinct and unrelated population from Orissa in eastern India. In vitro reporter assays revealed that the two significantly associated SNPs, located 63.8 kb upstream of PARK2 gene and represented in a single BIN of 8 SNPs, influenced the gene expression. A comparison of BINs between Indian and Vietnamese populations revealed differences in the BIN structures, explaining the heterogeneity and also the reason for non-replication of the associated genomic region in different populations.

  9. Mapping of PARK2 and PACRG Overlapping Regulatory Region Reveals LD Structure and Functional Variants in Association with Leprosy in Unrelated Indian Population Groups

    PubMed Central

    Chopra, Rupali; Aggarwal, Shweta; Kumar, Bhupender; Manvati, Siddharth; Kalaiarasan, Ponnusamy; Jena, Mamta; Garg, Vijay K.; Bhattacharya, Sambit N.; Bamezai, Rameshwar N. K.

    2013-01-01

    Leprosy is a chronic infectious disease caused by Mycobacterium Leprae, where the host genetic background plays an important role toward the disease pathogenesis. Various studies have identified a number of human genes in association with leprosy or its clinical forms. However, non-replication of results has hinted at the heterogeneity among associations between different population groups, which could be due to differently evolved LD structures and differential frequencies of SNPs within the studied regions of the genome. A need for systematic and saturated mapping of the associated regions with the disease is warranted to unravel the observed heterogeneity in different populations. Mapping of the PARK2 and PACRG gene regulatory region with 96 SNPs, with a resolution of 1 SNP per 1 Kb for PARK2 gene regulatory region in a North Indian population, showed an involvement of 11 SNPs in determining the susceptibility towards leprosy. The association was replicated in a geographically distinct and unrelated population from Orissa in eastern India. In vitro reporter assays revealed that the two significantly associated SNPs, located 63.8 kb upstream of PARK2 gene and represented in a single BIN of 8 SNPs, influenced the gene expression. A comparison of BINs between Indian and Vietnamese populations revealed differences in the BIN structures, explaining the heterogeneity and also the reason for non-replication of the associated genomic region in different populations. PMID:23861666

  10. Can social stories enhance the interpersonal conflict resolution skills of children with LD?

    PubMed

    Kalyva, Efrosini; Agaliotis, Ioannis

    2009-01-01

    Since many children with learning disabilities (LD) face interpersonal conflict resolution problems, this study examines the efficacy of social stories in helping them choose more appropriate interpersonal conflict resolution strategies. A social story was recorded and played to the 31 children with LD in the experimental group twice a week for a period of 1 month, while the 32 children with LD in the control group did not receive any intervention. The effects of the intervention were systematically examined by means of an interview with the participants, while teachers completed the T-MESSY (Matson, J. L. (1990). Matson Evaluation of Social Skills With Youngsters: Manual. Worthington, OR: International Diagnostic Systems). All children chose mainly avoidance and hostile strategies before the intervention, but children in the experimental group chose predominantly positive strategies both after the intervention and at follow-up in comparison to control children. Furthermore, children with LD who received the intervention were rated by their teachers as engaging in significantly less inappropriate social behaviors after the intervention and at follow-up in comparison to control children. The recorded changes in the choice of interpersonal conflict resolution strategies and the more positive teacher ratings for the experimental group indicate that social stories constitute a powerful intervention for the enhancement of the social competence of children with LD.

  11. Biogeochemistry and Spatial Distribution of the Microbial-Mineral Interface Using I2LD-FTMS

    NASA Astrophysics Data System (ADS)

    Scott, J. R.; Kauffman, M. E.; Kauffman, M. E.; Tremblay, P. L.

    2001-12-01

    Previous studies indicate that biogeochemistry can vary within individual mineral specimens in contact with microorganisms. These same studies have shown that microcosms containing a mixture of minerals simulating a heterogeneous geologic matrix do not yield the same results as the naturally occurring rock. Therefore, it is of utmost importance to develop analytical tools that can provide spatially correlative biogeochemical data of the microbial-mineral interface within naturally occurring geologic matrices. Imaging internal laser desorption Fourier transform mass spectrometry (I2LD-FTMS) can provide elemental and molecular information of the microbial-mineral interface at a spatial resolution limited only by the optical diffraction limit of the final focusing lens (down to 2 μ m). Additionally, the I2LD-FTMS used in this study has exceptional reproducibility, which can provide successive mapping sequences for depth-profiling studies. Basalt core samples, taken from the Snake River Plain Aquifer in southeastern Idaho, were mapped prior to, and after, exposure to a bacterial culture. The bacteria-basalt interface spectra were collected using the I2LD-FTMS at the INEEL. Mass spectra were recorded over a mass-to-charge range of 30-2500 Da with an average peak resolution of 15,000 using 10 μ m spots. Two-dimensional maps were constructed depicting the spatial distribution of the minerals within the basalt as well as the spatial distribution of the bacteria on the basalt surface. This represents the first reported application of I2LD-FTMS in the field of biogeochemistry.

  12. Academic procrastination and feelings toward procrastination in LD and non-LD students: Preliminary insights for future intervention.

    PubMed

    Hen, Meirav

    2018-01-01

    Academic procrastination is a prevalent behavior that negatively influences students' performance and well-being. The growing number of students with learning disabilities (LD) in higher education communities leads to the need to study and address academic procrastination in this unique population of students and to develop ways to prevent and intervene. The present study examined the difference in academic procrastination between LD, non-LD, and supported LD college students in Israel. Findings indicated a significant difference between the three groups, both in academic procrastination and in the desire to change this behavior. Interestingly, supported LD students were similar to non-LD students in all parameters of academic procrastination; however, they expressed less desire to change this behavior than unsupported LD students. These findings highlight the effect of general academic support on academic procrastination in LD students. Future studies will need to further explore the specific elements of support that most contribute to the reduction of academic procrastination in LD students. Specific support programs for academic procrastination in LD students who take into account the findings of these future studies can then be developed and studied.

  13. The score statistic of the LD-lod analysis: detecting linkage adaptive to linkage disequilibrium.

    PubMed

    Huang, J; Jiang, Y

    2001-01-01

    We study the properties of a modified lod score method for testing linkage that incorporates linkage disequilibrium (LD-lod). By examination of its score statistic, we show that the LD-lod score method adaptively combines two sources of information: (a) the IBD sharing score which is informative for linkage regardless of the existence of LD and (b) the contrast between allele-specific IBD sharing scores which is informative for linkage only in the presence of LD. We also consider the connection between the LD-lod score method and the transmission-disequilibrium test (TDT) for triad data and the mean test for affected sib pair (ASP) data. We show that, for triad data, the recessive LD-lod test is asymptotically equivalent to the TDT; and for ASP data, it is an adaptive combination of the TDT and the ASP mean test. We demonstrate that the LD-lod score method has relatively good statistical efficiency in comparison with the ASP mean test and the TDT for a broad range of LD and the genetic models considered in this report. Therefore, the LD-lod score method is an interesting approach for detecting linkage when the extent of LD is unknown, such as in a genome-wide screen with a dense set of genetic markers. Copyright 2001 S. Karger AG, Basel

  14. Acute oral toxicity: variability, reliability, relevance and interspecies comparison of rodent LD50 data from literature surveyed for the ACuteTox project.

    PubMed

    Hoffmann, Sebastian; Kinsner-Ovaskainen, Agnieszka; Prieto, Pilar; Mangelsdorf, Inge; Bieler, Christian; Cole, Thomas

    2010-12-01

    The ACuteTox project has aimed to optimise and prevalidate an in vitro testing strategy for predicting human acute toxicity. Ninety-seven reference substances were selected and an in vivo acute toxicity database was compiled. Comprehensive statistical analyses of the in vivo LD50 data to evaluate variability and reliability, interspecies correlation, predictive capacities with regard to EU and GHS toxicity categories, and deduction of performance criteria for in vitro methods is presented. For the majority of substances variability among rodent data followed a log normal distribution where good reproducibility was found. Rat and mouse interspecies comparison of LD50 studies by ordinary regression showed high correlation, with coefficients of determination, ranging between 0.8 and 0.9. Substance specific differences were only significant for warfarin and cycloheximide. No correlation of compound LD50 range with presumed study quality rank (by assigning Klimisch reliability scores) was found. Modelling based on LD50 variability showed that with at least 90% probability ∼54% of the substances would fall into only one GHS category and ∼44% would fall within two adjacent categories. These results could form the basis for deriving a predictive capacity that should be expected from alternative approaches to the conventional in vivo acute oral toxicity test. Copyright © 2010 Elsevier Inc. All rights reserved.

  15. Metrics for comparison of crystallographic maps

    DOE PAGES

    Urzhumtsev, Alexandre; Afonine, Pavel V.; Lunin, Vladimir Y.; ...

    2014-10-01

    Numerical comparison of crystallographic contour maps is used extensively in structure solution and model refinement, analysis and validation. However, traditional metrics such as the map correlation coefficient (map CC, real-space CC or RSCC) sometimes contradict the results of visual assessment of the corresponding maps. This article explains such apparent contradictions and suggests new metrics and tools to compare crystallographic contour maps. The key to the new methods is rank scaling of the Fourier syntheses. The new metrics are complementary to the usual map CC and can be more helpful in map comparison, in particular when only some of their aspects,more » such as regions of high density, are of interest.« less

  16. First-Year College Students with ADHD And/or LD: Differences in Engagement, Positive Core Self-Evaluation, School Preparation, and College Expectations

    ERIC Educational Resources Information Center

    DuPaul, George J.; Pinho, Trevor D.; Pollack, Brittany L.; Gormley, Matthew J.; Laracy, Seth D.

    2017-01-01

    Students with attention-deficit/hyperactivity disorder (ADHD) and/or learning disabilities (LD) experience significant challenges in making the transition from high school to college. This study examined the ways first-year college students with ADHD, LD, ADHD+LD, and comparison peers differ in engagement, core self-evaluation, high school…

  17. Stroop Color-Word Test: A Screening Measure of Selective Attention to Differentiate LD From Non LD Children.

    ERIC Educational Resources Information Center

    Lazarus, Philip J.; And Others

    1984-01-01

    Used the Stroop Color-Word Test to measure selective attention in learning disabled (N=45) and nonLD (N=50) children. Results indicated that LD children have a significant weakness in the process of selective attention compared to the nonLD children. Findings suggested that the Stroop is an effective screening measure. (JAC)

  18. 1059 and 1328nm LD pumped Nd:S-FAP solid state laser

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

    Sun Lianke; Zhang Shaojun; Zhao Shengzhi

    In this paper the authors introduce a new laser crystal--Nd{sup 3+}:Sr{sub 5}(PO{sub 4}){sub 3}F, Nd:S-FAP, and present its optical and physical characteristics. Based on the experiment lasing performance of CW LD pumped Nd:S-FAP crystal is reported here: the threshold and slope efficiency of 1059 nm Nd:S-FAP laser pumped by CW LD at 805nm are 7mW and 41%, and that of 1328nm Nd:S-FAP laser are 19mW and 35%. The comparison between experimental result and theoretical calculation is also discussed in this paper.

  19. The Leishmania donovani histidine acid ecto-phosphatase LdMAcP: insight into its structure and function.

    PubMed

    Papadaki, Amalia; Politou, Anastasia S; Smirlis, Despina; Kotini, Maria P; Kourou, Konstadina; Papamarcaki, Thomais; Boleti, Haralabia

    2015-05-01

    Acid ecto-phosphatase activity has been implicated in Leishmania donovani promastigote virulence. In the present study, we report data contributing to the molecular/structural and functional characterization of the L. donovani LdMAcP (L. donovani membrane acid phosphatase), member of the histidine acid phosphatase (HAcP) family. LdMAcP is membrane-anchored and shares high sequence identity with the major secreted L. donovani acid phosphatases (LdSAcPs). Sequence comparison of the LdMAcP orthologues in Leishmania sp. revealed strain polymorphism and species specificity for the L. donovani complex, responsible for visceral leishmaniasis (Khala azar), proposing thus a potential value of LdMAcP as an epidemiological or diagnostic tool. The extracellular orientation of the LdMAcP catalytic domain was confirmed in L. donovani promastigotes, wild-type (wt) and transgenic overexpressing a recombinant LdMAcP-mRFP1 (monomeric RFP1) chimera, as well as in transiently transfected mammalian cells expressing rLdMAcP-His. For the first time it is demonstrated in the present study that LdMAcP confers tartrate resistant acid ecto-phosphatase activity in live L. donovani promastigotes. The latter confirmed the long sought molecular identity of at least one enzyme contributing to this activity. Interestingly, the L. donovani rLdMAcP-mRFP1 promastigotes generated in this study, showed significantly higher infectivity and virulence indexes than control parasites in the infection of J774 mouse macrophages highlighting thereby a role for LdMAcP in the parasite's virulence.

  20. Prevalence of LD From Parental and Professional Perspectives: A Comparison of the Data From the National Survey of Children's Health and the Office of Special Education Programs' Reports to Congress.

    PubMed

    Pullen, Paige C

    Since the emergence of the field of learning disabilities (LD) in the late 1960s and early 1970s, controversy has surrounded issues regarding methods used for identification. The prevalence of students identified as LD increased steadily from the 1970s until the beginning of the 21st century, at which time it has decreased until at least 2011 (the most current data available from the U.S. Office of Education). In this article, I compare the prevalence rates of children aged 6 to 17 years being served in schools according to the Office of Special Education Programs with the prevalence rates as reported by parents on the National Survey of Children's Health. To date, no such comparison has been made that takes into account parents' knowledge of their children's disabilities. Results of the analyses reveal that parents report that their children have LD at a significantly higher rate than what is reported by schools of students receiving LD services. Most important, the longitudinal trend from 2001 to 2011 indicates that parents are reporting a slight increase whereas the Office of Special Education Programs is reporting a dramatic decrease in LD.

  1. Linkage and Association Mapping for Two Major Traits Used in the Maritime Pine Breeding Program: Height Growth and Stem Straightness

    PubMed Central

    Bink, Marco CAM; van Heerwaarden, Joost; Chancerel, Emilie; Boury, Christophe; Lesur, Isabelle; Isik, Fikret; Bouffier, Laurent; Plomion, Christophe

    2016-01-01

    Background Increasing our understanding of the genetic architecture of complex traits, through analyses of genotype-phenotype associations and of the genes/polymorphisms accounting for trait variation, is crucial, to improve the integration of molecular markers into forest tree breeding. In this study, two full-sib families and one breeding population of maritime pine were used to identify quantitative trait loci (QTLs) for height growth and stem straightness, through linkage analysis (LA) and linkage disequilibrium (LD) mapping approaches. Results The populations used for LA consisted of two unrelated three-generation full-sib families (n = 197 and n = 477). These populations were assessed for height growth or stem straightness and genotyped for 248 and 217 markers, respectively. The population used for LD mapping consisted of 661 founders of the first and second generations of the breeding program. This population was phenotyped for the same traits and genotyped for 2,498 single-nucleotide polymorphism (SNP) markers corresponding to 1,652 gene loci. The gene-based reference genetic map of maritime pine was used to localize and compare the QTLs detected by the two approaches, for both traits. LA identified three QTLs for stem straightness and two QTLs for height growth. The LD study yielded seven significant associations (P ≤ 0.001): four for stem straightness and three for height growth. No colocalisation was found between QTLs identified by LA and SNPs detected by LD mapping for the same trait. Conclusions This study provides the first comparison of LA and LD mapping approaches in maritime pine, highlighting the complementary nature of these two approaches for deciphering the genetic architecture of two mandatory traits of the breeding program. PMID:27806077

  2. Linkage and Association Mapping for Two Major Traits Used in the Maritime Pine Breeding Program: Height Growth and Stem Straightness.

    PubMed

    Bartholomé, Jérôme; Bink, Marco Cam; van Heerwaarden, Joost; Chancerel, Emilie; Boury, Christophe; Lesur, Isabelle; Isik, Fikret; Bouffier, Laurent; Plomion, Christophe

    2016-01-01

    Increasing our understanding of the genetic architecture of complex traits, through analyses of genotype-phenotype associations and of the genes/polymorphisms accounting for trait variation, is crucial, to improve the integration of molecular markers into forest tree breeding. In this study, two full-sib families and one breeding population of maritime pine were used to identify quantitative trait loci (QTLs) for height growth and stem straightness, through linkage analysis (LA) and linkage disequilibrium (LD) mapping approaches. The populations used for LA consisted of two unrelated three-generation full-sib families (n = 197 and n = 477). These populations were assessed for height growth or stem straightness and genotyped for 248 and 217 markers, respectively. The population used for LD mapping consisted of 661 founders of the first and second generations of the breeding program. This population was phenotyped for the same traits and genotyped for 2,498 single-nucleotide polymorphism (SNP) markers corresponding to 1,652 gene loci. The gene-based reference genetic map of maritime pine was used to localize and compare the QTLs detected by the two approaches, for both traits. LA identified three QTLs for stem straightness and two QTLs for height growth. The LD study yielded seven significant associations (P ≤ 0.001): four for stem straightness and three for height growth. No colocalisation was found between QTLs identified by LA and SNPs detected by LD mapping for the same trait. This study provides the first comparison of LA and LD mapping approaches in maritime pine, highlighting the complementary nature of these two approaches for deciphering the genetic architecture of two mandatory traits of the breeding program.

  3. 7 CFR 1737.32 - Loan Design (LD).

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... Studies-Area Coverage Survey and Loan Design § 1737.32 Loan Design (LD). (a) A loan application requires supporting data collectively called a “Loan Design.” The LD contains a forecast of service requirements and a... 7 Agriculture 11 2012-01-01 2012-01-01 false Loan Design (LD). 1737.32 Section 1737.32 Agriculture...

  4. 7 CFR 1737.32 - Loan Design (LD).

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... Studies-Area Coverage Survey and Loan Design § 1737.32 Loan Design (LD). (a) A loan application requires supporting data collectively called a “Loan Design.” The LD contains a forecast of service requirements and a... 7 Agriculture 11 2013-01-01 2013-01-01 false Loan Design (LD). 1737.32 Section 1737.32 Agriculture...

  5. 7 CFR 1737.32 - Loan Design (LD).

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... Studies-Area Coverage Survey and Loan Design § 1737.32 Loan Design (LD). (a) A loan application requires supporting data collectively called a “Loan Design.” The LD contains a forecast of service requirements and a... 7 Agriculture 11 2010-01-01 2010-01-01 false Loan Design (LD). 1737.32 Section 1737.32 Agriculture...

  6. 7 CFR 1737.32 - Loan Design (LD).

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... Studies-Area Coverage Survey and Loan Design § 1737.32 Loan Design (LD). (a) A loan application requires supporting data collectively called a “Loan Design.” The LD contains a forecast of service requirements and a... 7 Agriculture 11 2011-01-01 2011-01-01 false Loan Design (LD). 1737.32 Section 1737.32 Agriculture...

  7. 7 CFR 1737.32 - Loan Design (LD).

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... Studies-Area Coverage Survey and Loan Design § 1737.32 Loan Design (LD). (a) A loan application requires supporting data collectively called a “Loan Design.” The LD contains a forecast of service requirements and a... 7 Agriculture 11 2014-01-01 2014-01-01 false Loan Design (LD). 1737.32 Section 1737.32 Agriculture...

  8. Perception of Nonverbal Social Cues by Regular Education, ADHD, and ADHD/LD Students.

    ERIC Educational Resources Information Center

    Hall, Cathy W.; Peterson, Andrea D.; Webster, Raymond E.; Bolen, Larry M.; Brown, Michael B.

    1999-01-01

    Study examined ability of attention deficit hyperactive disorder (ADHD) children with and without learning disability to perceive nonverbal social cues. ADHD/LD children demonstrated significant difficulty in comparison to their peers in effectively perceiving paralanguage cues. This group also showed significant improvement on the Postures and…

  9. Biochemical Properties and Mechanism of Action of Enterocin LD3 Purified from Enterococcus hirae LD3.

    PubMed

    Gupta, Aabha; Tiwari, Santosh Kumar; Netrebov, Victoria; Chikindas, Michael L

    2016-09-01

    Enterocin LD3 was purified using activity-guided multistep chromatography techniques such as cation-exchange and gel-filtration chromatography. The preparation's purity was tested using reverse-phase ultra-performance liquid chromatography. The specific activity was tested to be 187.5 AU µg(-1) with 13-fold purification. Purified enterocin LD3 was heat stable up to 121 °C (at 15 psi pressure) and pH 2-6. The activity was lost in the presence of papain, reduced by proteinase K, pepsin and trypsin, but was unaffected by amylase and lipase, suggesting proteinaceous nature of the compound and no role of carbohydrate and lipid moieties in the activity. MALDI-TOF/MS analysis of purified enterocin LD3 resolved m/z 4114.6, and N-terminal amino acid sequence was found to be H2NQGGQANQ-COOH suggesting a new bacteriocin. Dissipation of membrane potential, loss of internal ATP and bactericidal effect were recorded when indicator strain Micrococcus luteus was treated with enterocin LD3. It inhibited Gram-positive and Gram-negative bacteria including human pathogens such as Staphylococcus aureus, Pseudomonas fluorescens, Pseudomonas aeruginosa, Salmonella typhi, Shigella flexneri, Listeria monocytogenes, Escherichia coli O157:H7, E. coli (urogenic, a clinical isolate) and Vibrio sp. These properties of purified enterocin LD3 suggest its applications as a food biopreservative and as an alternative to clinical antibiotics.

  10. Technetium-99m Pyrophosphate: Comparison of ED50 for Tetany and Acidosis with Acute LD500

    DTIC Science & Technology

    electrocardiogram and chemical analysis revealed that the hypocalcemic effect occurs at a much lower dosage than for the LD50. Polyphosphate was found to be more...toxic by the LD50 analysis than pyrophosphate. It is emphasized that the hypocalcemic toxic effects should be the determining factor in deciding what...to 1 with regard to the first signs of hypocalcemia by electrocardiographic measurements (i.e., 2 mg/kg). On this basis an injection of no more than 1 mg/kg is recommended to maintain a safety factor of around 10 to 1.

  11. Impact of population structure, effective bottleneck time, and allele frequency on linkage disequilibrium maps

    PubMed Central

    Zhang, Weihua; Collins, Andrew; Gibson, Jane; Tapper, William J.; Hunt, Sarah; Deloukas, Panos; Bentley, David R.; Morton, Newton E.

    2004-01-01

    Genetic maps in linkage disequilibrium (LD) units play the same role for association mapping as maps in centimorgans provide at much lower resolution for linkage mapping. Association mapping of genes determining disease susceptibility and other phenotypes is based on the theory of LD, here applied to relations with three phenomena. To test the theory, markers at high density along a 10-Mb continuous segment of chromosome 20q were studied in African-American, Asian, and Caucasian samples. Population structure, whether created by pooling samples from divergent populations or by the mating pattern in a mixed population, is accurately bioassayed from genotype frequencies. The effective bottleneck time for Eurasians is substantially less than for migration out of Africa, reflecting later bottlenecks. The classical dependence of allele frequency on mutation age does not hold for the generally shorter time span of inbreeding and LD. Limitation of the classical theory to mutation age justifies the assumption of constant time in a LD map, except for alleles that were rare at the effective bottleneck time or have arisen since. This assumption is derived from the Malecot model and verified in all samples. Tested measures of relative efficiency, support intervals, and localization error determine the operating characteristics of LD maps that are applicable to every sexually reproducing species, with implications for association mapping, high-resolution linkage maps, evolutionary inference, and identification of recombinogenic sequences. PMID:15604137

  12. Impact of population structure, effective bottleneck time, and allele frequency on linkage disequilibrium maps.

    PubMed

    Zhang, Weihua; Collins, Andrew; Gibson, Jane; Tapper, William J; Hunt, Sarah; Deloukas, Panos; Bentley, David R; Morton, Newton E

    2004-12-28

    Genetic maps in linkage disequilibrium (LD) units play the same role for association mapping as maps in centimorgans provide at much lower resolution for linkage mapping. Association mapping of genes determining disease susceptibility and other phenotypes is based on the theory of LD, here applied to relations with three phenomena. To test the theory, markers at high density along a 10-Mb continuous segment of chromosome 20q were studied in African-American, Asian, and Caucasian samples. Population structure, whether created by pooling samples from divergent populations or by the mating pattern in a mixed population, is accurately bioassayed from genotype frequencies. The effective bottleneck time for Eurasians is substantially less than for migration out of Africa, reflecting later bottlenecks. The classical dependence of allele frequency on mutation age does not hold for the generally shorter time span of inbreeding and LD. Limitation of the classical theory to mutation age justifies the assumption of constant time in a LD map, except for alleles that were rare at the effective bottleneck time or have arisen since. This assumption is derived from the Malecot model and verified in all samples. Tested measures of relative efficiency, support intervals, and localization error determine the operating characteristics of LD maps that are applicable to every sexually reproducing species, with implications for association mapping, high-resolution linkage maps, evolutionary inference, and identification of recombinogenic sequences.

  13. Improving Test-Taking Skills of LD Adolescents.

    ERIC Educational Resources Information Center

    Markel, Geraldine

    1981-01-01

    A multicomponent model to improve test taking skills of learning disabled (LD) adolescents is proposed to encourage anxiety management, problem solving skills, assertiveness, study skills, and student confidence and control. The role of the LD consultant in this process is described. (CL)

  14. Graphic organizers and their effects on the reading comprehension of students with LD: a synthesis of research.

    PubMed

    Kim, Ae-Hwa; Vaughn, Sharon; Wanzek, Jeanne; Wei, Shangjin

    2004-01-01

    Previous research studies examining the effects of graphic organizers on reading comprehension for students with learning disabilities (LD) are reviewed. An extensive search of the professional literature between 1963 and June 2001 yielded a total of 21 group design intervention studies that met the criteria for inclusion in the synthesis. Using graphic organizers (i.e., semantic organizers, framed outlines, cognitive maps with and without a mnemonic) was associated with improved reading comprehension overall for students with LD. Compared to standardized reading measures, researcher-developed comprehension measures were associated with higher effect sizes. Initial gains demonstrated when using graphic organizers were not revealed during later comprehension tasks or on new comprehension tasks.

  15. Universal LD50 predictions using deep learning

    EPA Science Inventory

    NICEATM Predictive Models for Acute Oral Systemic Toxicity LD50 entry Risa R. Sayre (sayre.risa@epa.gov) & Christopher M. Grulke Our approach uses an ensemble of multilayer perceptron regressions to predict rat acute oral LD50 values from chemical features. Features were genera...

  16. ReVeaLD: a user-driven domain-specific interactive search platform for biomedical research.

    PubMed

    Kamdar, Maulik R; Zeginis, Dimitris; Hasnain, Ali; Decker, Stefan; Deus, Helena F

    2014-02-01

    Bioinformatics research relies heavily on the ability to discover and correlate data from various sources. The specialization of life sciences over the past decade, coupled with an increasing number of biomedical datasets available through standardized interfaces, has created opportunities towards new methods in biomedical discovery. Despite the popularity of semantic web technologies in tackling the integrative bioinformatics challenge, there are many obstacles towards its usage by non-technical research audiences. In particular, the ability to fully exploit integrated information needs using improved interactive methods intuitive to the biomedical experts. In this report we present ReVeaLD (a Real-time Visual Explorer and Aggregator of Linked Data), a user-centered visual analytics platform devised to increase intuitive interaction with data from distributed sources. ReVeaLD facilitates query formulation using a domain-specific language (DSL) identified by biomedical experts and mapped to a self-updated catalogue of elements from external sources. ReVeaLD was implemented in a cancer research setting; queries included retrieving data from in silico experiments, protein modeling and gene expression. ReVeaLD was developed using Scalable Vector Graphics and JavaScript and a demo with explanatory video is available at http://www.srvgal78.deri.ie:8080/explorer. A set of user-defined graphic rules controls the display of information through media-rich user interfaces. Evaluation of ReVeaLD was carried out as a game: biomedical researchers were asked to assemble a set of 5 challenge questions and time and interactions with the platform were recorded. Preliminary results indicate that complex queries could be formulated under less than two minutes by unskilled researchers. The results also indicate that supporting the identification of the elements of a DSL significantly increased intuitiveness of the platform and usability of semantic web technologies by domain users

  17. LD Typing for Bone Marrow Transplantation.

    DTIC Science & Technology

    1977-06-15

    LD ( HLA —D) locus is the least understood. Separate Navy contracts deal with development of knowledge regarding the specific antigens present at this...locus. This contract is directed to the problem of collecting homozygous typing cells which can be used for P . ,At ~i1&~ L!~Y ~~~~ •i~~•~ (LD ( HLA —D...therefore decided to examine this group with preliminary testing to see whether they could yield the type ef cells necessary for HLA —D typing. Because

  18. L&D Manual Turn Lane Storage Validation/Update

    DOT National Transportation Integrated Search

    2012-08-01

    Queuing occurs at intersections mostly due to overflow or inadequacy of turn bays. The ODOT L&D : Manual Volume 1 has storage requirements for both signalized and unsignalized intersections. Figures : 401-9E and 401-10E of the L&D Manual provide the ...

  19. Oral acute toxic class method: a successful alternative to the oral LD50 test.

    PubMed

    Schlede, Eva; Genschow, Elke; Spielmann, Horst; Stropp, Gisela; Kayser, Detlev

    2005-06-01

    The oral acute toxic class method (ATC method) was developed as an alternative to replace the oral LD50 test. The ATC method is a sequential testing procedure using only three animals of one sex per step at any of the defined dose levels. Depending on the mortality rate three but never more than six animals are used per dose level. This approach results in the reduction of numbers of animals used in comparison to the LD50 test by 40-70%. The principle of the oral ATC method is based on the Probit model and it was first evaluated on a biometric basis before a national and subsequently an international ring study were conducted. The results demonstrated an excellent agreement between the toxicity and the animal numbers predicted biometrically and observed in the validation studies. The oral ATC method was adopted as an official test guideline by OECD in 1996 and was slightly amended in 2001. The ATC method has been successfully used in Germany and in 2003 >85% of all tests on acute oral toxicity testing was conducted as oral ATC tests. In member states of the European Union the ATC method is used in the range of 50% of all tests conducted. Meanwhile the oral LD50 test has been deleted by OECD, by the European Union and by the USA, making the use of alternatives to the oral LD50 test mandatory.

  20. Learned Helplessness: Perceived Effects of Ability and Effort on Academic Performance Among EH and LD/EH Children.

    ERIC Educational Resources Information Center

    Luchow, Jed P.; And Others

    The Intellectual Achievement Responsibility Questionnaire, which measures perceived locus of control of academic outcomes, was administered to 28 emotionally handicapped (EH) and 25 learning disabled (LD)/EH children. Between group comparison revealed that EH children took significantly more personal responsibility for academic failure than did…

  1. Effect of CAI on Achievement of LD Students in English

    ERIC Educational Resources Information Center

    Sivaram, R. T.; Ramar, R.

    2014-01-01

    The present experimental study was undertaken with three objectives in view, (i) to identify students with language learning disabilities (ii) to develop CAI software to teach LD students through computer-assisted instruction and (iii) to measure the effectiveness of CAI with special reference to LD students. Two matched groups of LD students were…

  2. TELSQA and the Mainstreamed LD Social Studies Student.

    ERIC Educational Resources Information Center

    Tama, M. Carrol; Martinez, David H.

    1988-01-01

    Examines research about learning disabled (LD) students and presents an LD learning-style profile. Describes a learning activity, TELSQA, that social studies teachers can use to encourage reading comprehension. TELSQA asks students to identify title (T), examine material (E), look for important words (L), self-question (SQ), and answer…

  3. LD in AD 2000.

    ERIC Educational Resources Information Center

    Smith, Bert Kruger

    The author discusses potential problems and benefits for learning disabled (LD) students in the year 2000. Considered are developments in three areas: human engineering (such as the role of amniocentesis in prevention of disabilities), education (including new audiovisual technology and a restructuring of secondary education), and human…

  4. The relation of LD and gender with emotional intelligence in college students.

    PubMed

    Reiff, H B; Hatzes, N M; Bramel, M H; Gibbon, T

    2001-01-01

    This study examined the relation of learning disabilities (LD) and gender with emotional intelligence in 128 college students. Fifty-four students with LD (32 men and 22 women) and 74 without LD (34 men and 40 women) attending two colleges and one university participated in the study. Emotional intelligence was assessed using the Emotional Quotient Inventory (EQ-i; BarOn,1997), a self-report instrument designed to measure interpersonal and intrapersonal skills, stress management, adaptability, and general mood. A 2-way multivariate analysis of variance (MANOVA) was performed to examine the main effects of LD and gender and the interaction of the two main effects on the five composites of the EQ-i. Students with LD had fewer credits and lower scholastic aptitude test (SAT) scores, high school grade point averages (GPAs), and college GPAs than students without LD; women students were older and had higher college GPAs than men students. Results of the MANOVA indicated significant main effects of both LD and gender; no significant interaction occurred. Post hoc univariate analyses of the five composites revealed significant differences between students with LD and students without LD on stress management and adaptability, significant differences between men and women students on interpersonal skills, and significant differences of the interaction of LD and gender on interpersonal skills.

  5. Tunable single frequency fiber laser based on FP-LD injection locking.

    PubMed

    Zhang, Aiqin; Feng, Xinhuan; Wan, Minggui; Li, Zhaohui; Guan, Bai-ou

    2013-05-20

    We propose and demonstrate a tunable single frequency fiber laser based on Fabry Pérot laser diode (FP-LD) injection locking. The single frequency operation principle is based on the fact that the output from a FP-LD injection locked by a multi-longitudinal-mode (MLM) light can have fewer longitudinal-modes number and narrower linewidth. By inserting a FP-LD in a fiber ring laser cavity, single frequency operation can be possibly achieved when stable laser oscillation established after many roundtrips through the FP-LD. Wavelength switchable single frequency lasing can be achieved by adjusting the tunable optical filter (TOF) in the cavity to coincide with different mode of the FP-LD. By adjustment of the drive current of the FP-LD, the lasing modes would shift and wavelength tunable operation can be obtained. In experiment, a wavelength tunable range of 32.4 nm has been obtained by adjustment of the drive current of the FP-LD and a tunable filter in the ring cavity. Each wavelength has a side-mode suppression ratio (SMSR) of at least 41 dB and a linewidth of about 13 kHz.

  6. Photophysical properties of a laser dye (LD-473) in different solvents

    NASA Astrophysics Data System (ADS)

    Ibnaouf, K. H.; Alhathlool, R.; Ali, M. K. M.

    2018-06-01

    In this paper, we investigated the spectroscopic properties the 1, 2, 3, 8-tetrahydrofuran, 2, 3, 8-(LD-473) dissolved in seven types of solvents with different concentrations. The absorption, emission, fluorescence and its quantum yield and Stokes shift of LD-473 were measured. The amplified spontaneous emission (ASE) spectra of LD-473 have been obtained using a transverse laser cavity configuration, where the LD-473 was pumped by laser pulses from the third harmonic of an Nd: YAG laser (355 nm). LD-473 in non-polar solvents exhibits dual ASEs around 445 and 470 nm, whereas the corresponding fluorescence spectrum shows only one peak around 437 nm. The peak at 470 nm is due to the combination of two excited molecules and the solvent between them.

  7. 20180411 - Universal LD50 predictions using deep learning (ICCVAM)

    EPA Science Inventory

    NICEATM Predictive Models for Acute Oral Systemic Toxicity LD50 entry Risa R. Sayre (sayre.risa@epa.gov) & Christopher M. Grulke Our approach uses an ensemble of multilayer perceptron regressions to predict rat acute oral LD50 values from chemical features. Features were gene...

  8. Characteristic behaviors of students with LD who have teacher-identified math weaknesses.

    PubMed

    Bryant, D P; Bryant, B R; Hammill, D D

    2000-01-01

    Mathematics learning disabilities (LD) have gained increased attention over the last decade from both researchers and practitioners. A large percentage of students receiving learning disability services experience difficulties with mathematics, but little research has examined the specific mathematics behaviors of students with LD who have teacher-identified math weaknesses. This study examines the literature on mathematics LD and identifies specific behaviors from that body of research for the purpose of determining the extent to which those behaviors are observed in students with LD. Data are presented from observations of 391 special education professionals on 1724 students with LD, 870 of whom had identified math weaknesses and 854 of whom did not. Our results validate the existing literature and provide implications for teachers, researchers, and others interested in studying mathematics LD.

  9. OdorMapComparer: an application for quantitative analyses and comparisons of fMRI brain odor maps.

    PubMed

    Liu, Nian; Xu, Fuqiang; Miller, Perry L; Shepherd, Gordon M

    2007-01-01

    Brain odor maps are reconstructed flat images that describe the spatial activity patterns in the glomerular layer of the olfactory bulbs in animals exposed to different odor stimuli. We have developed a software application, OdorMapComparer, to carry out quantitative analyses and comparisons of the fMRI odor maps. This application is an open-source window program that first loads two odor map images being compared. It allows image transformations including scaling, flipping, rotating, and warping so that the two images can be appropriately aligned to each other. It performs simple subtraction, addition, and average of signals in the two images. It also provides comparative statistics including the normalized correlation (NC) and spatial correlation coefficient. Experimental studies showed that the rodent fMRI odor maps for aliphatic aldehydes displayed spatial activity patterns that are similar in gross outlines but somewhat different in specific subregions. Analyses with OdorMapComparer indicate that the similarity between odor maps decreases with increasing difference in the length of carbon chains. For example, the map of butanal is more closely related to that of pentanal (with a NC = 0.617) than to that of octanal (NC = 0.082), which is consistent with animal behavioral studies. The study also indicates that fMRI odor maps are statistically odor-specific and repeatable across both the intra- and intersubject trials. OdorMapComparer thus provides a tool for quantitative, statistical analyses and comparisons of fMRI odor maps in a fashion that is integrated with the overall odor mapping techniques.

  10. The Myth of the L.D. WISC-R Profile.

    ERIC Educational Resources Information Center

    Miller, Maurice; Walker, Kenneth P.

    1981-01-01

    The review cites methodological and statistical flaws in studies attempting to identify subtest patterns on the Wechsler Intelligence Scale for Children-Revised indicative of learning disabilities (LD) and concludes that no LD pattern has been found and the search for such a pattern is not justified. (Author/CL)

  11. Lo/Ld phase coexistence modulation induced by GM1.

    PubMed

    Puff, Nicolas; Watanabe, Chiho; Seigneuret, Michel; Angelova, Miglena I; Staneva, Galya

    2014-08-01

    Lipid rafts are assumed to undergo biologically important size-modulations from nanorafts to microrafts. Due to the complexity of cellular membranes, model systems become important tools, especially for the investigation of the factors affecting "raft-like" Lo domain size and the search for Lo nanodomains as precursors in Lo microdomain formation. Because lipid compositional change is the primary mechanism by which a cell can alter membrane phase behavior, we studied the effect of the ganglioside GM1 concentration on the Lo/Ld lateral phase separation in PC/SM/Chol/GM1 bilayers. GM1 above 1mol % abolishes the formation of the micrometer-scale Lo domains observed in GUVs. However, the apparently homogeneous phase observed in optical microscopy corresponds in fact, within a certain temperature range, to a Lo/Ld lateral phase separation taking place below the optical resolution. This nanoscale phase separation is revealed by fluorescence spectroscopy, including C12NBD-PC self-quenching and Laurdan GP measurements, and is supported by Gaussian spectral decomposition analysis. The temperature of formation of nanoscale Lo phase domains over an Ld phase is determined, and is shifted to higher values when the GM1 content increases. A "morphological" phase diagram could be made, and it displays three regions corresponding respectively to Lo/Ld micrometric phase separation, Lo/Ld nanometric phase separation, and a homogeneous Ld phase. We therefore show that a lipid only-based mechanism is able to control the existence and the sizes of phase-separated membrane domains. GM1 could act on the line tension, "arresting" domain growth and thereby stabilizing Lo nanodomains. Copyright © 2014 Elsevier B.V. All rights reserved.

  12. Design of high precision temperature control system for TO packaged LD

    NASA Astrophysics Data System (ADS)

    Liang, Enji; Luo, Baoke; Zhuang, Bin; He, Zhengquan

    2017-10-01

    Temperature is an important factor affecting the performance of TO package LD. In order to ensure the safe and stable operation of LD, a temperature control circuit for LD based on PID technology is designed. The MAX1978 and an external PID circuit are used to form a control circuit that drives the thermoelectric cooler (TEC) to achieve control of temperature and the external load can be changed. The system circuit has low power consumption, high integration and high precision,and the circuit can achieve precise control of the LD temperature. Experiment results show that the circuit can achieve effective and stable control of the laser temperature.

  13. LD Hub: a centralized database and web interface to perform LD score regression that maximizes the potential of summary level GWAS data for SNP heritability and genetic correlation analysis.

    PubMed

    Zheng, Jie; Erzurumluoglu, A Mesut; Elsworth, Benjamin L; Kemp, John P; Howe, Laurence; Haycock, Philip C; Hemani, Gibran; Tansey, Katherine; Laurin, Charles; Pourcain, Beate St; Warrington, Nicole M; Finucane, Hilary K; Price, Alkes L; Bulik-Sullivan, Brendan K; Anttila, Verneri; Paternoster, Lavinia; Gaunt, Tom R; Evans, David M; Neale, Benjamin M

    2017-01-15

    LD score regression is a reliable and efficient method of using genome-wide association study (GWAS) summary-level results data to estimate the SNP heritability of complex traits and diseases, partition this heritability into functional categories, and estimate the genetic correlation between different phenotypes. Because the method relies on summary level results data, LD score regression is computationally tractable even for very large sample sizes. However, publicly available GWAS summary-level data are typically stored in different databases and have different formats, making it difficult to apply LD score regression to estimate genetic correlations across many different traits simultaneously. In this manuscript, we describe LD Hub - a centralized database of summary-level GWAS results for 173 diseases/traits from different publicly available resources/consortia and a web interface that automates the LD score regression analysis pipeline. To demonstrate functionality and validate our software, we replicated previously reported LD score regression analyses of 49 traits/diseases using LD Hub; and estimated SNP heritability and the genetic correlation across the different phenotypes. We also present new results obtained by uploading a recent atopic dermatitis GWAS meta-analysis to examine the genetic correlation between the condition and other potentially related traits. In response to the growing availability of publicly accessible GWAS summary-level results data, our database and the accompanying web interface will ensure maximal uptake of the LD score regression methodology, provide a useful database for the public dissemination of GWAS results, and provide a method for easily screening hundreds of traits for overlapping genetic aetiologies. The web interface and instructions for using LD Hub are available at http://ldsc.broadinstitute.org/ CONTACT: jie.zheng@bristol.ac.ukSupplementary information: Supplementary data are available at Bioinformatics online.

  14. Use of linkage disequilibrium approaches to map genes for bipolar disorder in the Costa Rican population

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

    Escamilla, M.A.; Reus, V.I.; Smith, L.B.

    1996-05-31

    Linkage disequilibrium (LD) analysis provides a powerful means for screening the genome to map the location of disease genes, such as those for bipolar disorder (BP). As described in this paper, the population of the Central Valley of Costa Rica, which is descended from a small number of founders, should be suitable for LD mapping; this assertion is supported by reconstruction of extended haplotypes shared by distantly related individuals in this population suffering low-frequency hearing loss (LFHL1), which has previously been mapped by linkage analysis. A sampling strategy is described for applying LD methods to map genes for BP, andmore » clinical and demographic characteristics of an initially collected sample are discussed. This sample will provide a complement to a previously collected set of Costa Rican BP families which is under investigation using standard linkage analysis. 42 refs., 4 figs., 2 tabs.« less

  15. Social Information Processing and Emotional Understanding in Children with LD

    ERIC Educational Resources Information Center

    Bauminger, Nirit; Edelsztein, Hany Schorr; Morash, Janice

    2005-01-01

    The present study aimed to comprehensively examine social cognition processes in children with and without learning disabilities (LD), focusing on social information processing (SIP) and complex emotional understanding capabilities such as understanding complex, mixed, and hidden emotions. Participants were 50 children with LD (age range 9.4-12.7;…

  16. The botulinum neurotoxin LD50 test - problems and solutions.

    PubMed

    Bitz, Silke

    2010-01-01

    Apart from the fact that the LD50 test is generally considered a procedure causing severe distress, which alone should result in its immediate deletion, it also conflicts with the EU wide ban on cosmetic testing in animals in the case of Botulinum Neurotoxin (BoNT) testing. The European Pharmacopoeia monograph allows for the use of three alternative methods provided they are validated. However these alternative assays are neither implemented by the manufactures of BoNT products nor are they enforced by the responsible authorities, e.g. by deleting the LD50 from the European Pharmacopoeia. The number of animals used for the testing of BoNT is not officially recorded. However, data from an undercover investigation allow the estimation that the number of mice used in LD50tests for BoNT products is greater than 600,000 per year worldwide.

  17. Rectangular pulsed LD pumped saturable output coupler (SOC) Q-switched microchip laser

    NASA Astrophysics Data System (ADS)

    Wang, Yan-biao; Wang, Sha; Feng, Guo-ying; Zhou, Shou-huan

    2017-02-01

    We studied the cw LD and rectangular pulsed LD pumped saturable output coupler (SOC) passively Q-switched Nd:YVO4 transmission microchip laser experimentally. We demonstrated that the SOC passively Q-switched Nd:YVO4 transmission microchip laser pumped by a highly stabilized narrow bandwidth pulsed LD has a much lower timing jitter than pumped by a continuous wave (CW) LD, especially at low output frequency regime. By changing the pump beam size in the rectangular shape pulsed pump scheme, the output frequency can be achieved from 333.3 kHz to 71.4 kHz, while the relative timing jitter decreased from 0.09865% to 0.03115% accordingly. Additionally, the microchip laser has a good stability of output power, the power fluctuation below 2%.

  18. Linkage disequilibrium fine mapping of quantitative trait loci: A simulation study

    PubMed Central

    Abdallah, Jihad M; Goffinet, Bruno; Cierco-Ayrolles, Christine; Pérez-Enciso, Miguel

    2003-01-01

    Recently, the use of linkage disequilibrium (LD) to locate genes which affect quantitative traits (QTL) has received an increasing interest, but the plausibility of fine mapping using linkage disequilibrium techniques for QTL has not been well studied. The main objectives of this work were to (1) measure the extent and pattern of LD between a putative QTL and nearby markers in finite populations and (2) investigate the usefulness of LD in fine mapping QTL in simulated populations using a dense map of multiallelic or biallelic marker loci. The test of association between a marker and QTL and the power of the test were calculated based on single-marker regression analysis. The results show the presence of substantial linkage disequilibrium with closely linked marker loci after 100 to 200 generations of random mating. Although the power to test the association with a frequent QTL of large effect was satisfactory, the power was low for the QTL with a small effect and/or low frequency. More powerful, multi-locus methods may be required to map low frequent QTL with small genetic effects, as well as combining both linkage and linkage disequilibrium information. The results also showed that multiallelic markers are more useful than biallelic markers to detect linkage disequilibrium and association at an equal distance. PMID:12939203

  19. Prospects of Fine-Mapping Trait-Associated Genomic Regions by Using Summary Statistics from Genome-wide Association Studies.

    PubMed

    Benner, Christian; Havulinna, Aki S; Järvelin, Marjo-Riitta; Salomaa, Veikko; Ripatti, Samuli; Pirinen, Matti

    2017-10-05

    During the past few years, various novel statistical methods have been developed for fine-mapping with the use of summary statistics from genome-wide association studies (GWASs). Although these approaches require information about the linkage disequilibrium (LD) between variants, there has not been a comprehensive evaluation of how estimation of the LD structure from reference genotype panels performs in comparison with that from the original individual-level GWAS data. Using population genotype data from Finland and the UK Biobank, we show here that a reference panel of 1,000 individuals from the target population is adequate for a GWAS cohort of up to 10,000 individuals, whereas smaller panels, such as those from the 1000 Genomes Project, should be avoided. We also show, both theoretically and empirically, that the size of the reference panel needs to scale with the GWAS sample size; this has important consequences for the application of these methods in ongoing GWAS meta-analyses and large biobank studies. We conclude by providing software tools and by recommending practices for sharing LD information to more efficiently exploit summary statistics in genetics research. Copyright © 2017 American Society of Human Genetics. Published by Elsevier Inc. All rights reserved.

  20. Extended Intermarker Linkage Disequilibrium in the Afrikaners

    PubMed Central

    Hall, Diana; Wijsman, Ellen M.; Roos, J. Louw; Gogos, Joseph A.; Karayiorgou, Maria

    2002-01-01

    In this study we conducted an investigation of the background level of linkage disequilibrium (LD) in the Afrikaner population to evaluate the appropriateness of this genetic isolate for mapping complex traits. We analyzed intermarker LD in 62 nuclear families using microsatellite markers covering extended chromosomal regions. The markers were selected to allow the first direct comparison of long-range LD in the Afrikaners to LD in other demographic groups. Using several statistical measures, we find significant evidence for LD in the Afrikaners extending remarkably over a 6-cM range. In contrast, LD decays significantly beyond 3-cM distances in the other founder and outbred populations examined. This study strongly supports the appropriateness of the Afrikaner population for genome-wide scans that exploit LD to map common, multigenic disorders. PMID:12045148

  1. Extended intermarker linkage disequilibrium in the Afrikaners.

    PubMed

    Hall, Diana; Wijsman, Ellen M; Roos, J Louw; Gogos, Joseph A; Karayiorgou, Maria

    2002-06-01

    In this study we conducted an investigation of the background level of linkage disequilibrium (LD) in the Afrikaner population to evaluate the appropriateness of this genetic isolate for mapping complex traits. We analyzed intermarker LD in 62 nuclear families using microsatellite markers covering extended chromosomal regions. The markers were selected to allow the first direct comparison of long-range LD in the Afrikaners to LD in other demographic groups. Using several statistical measures, we find significant evidence for LD in the Afrikaners extending remarkably over a 6-cM range. In contrast, LD decays significantly beyond 3-cM distances in the other founder and outbred populations examined. This study strongly supports the appropriateness of the Afrikaner population for genome-wide scans that exploit LD to map common, multigenic disorders.

  2. Quality of life in newly diagnosed children with specific learning disabilities (SpLD) and differences from typically developing children: a study of child and parent reports.

    PubMed

    Ginieri-Coccossis, M; Rotsika, V; Skevington, S; Papaevangelou, S; Malliori, M; Tomaras, V; Kokkevi, A

    2013-07-01

    Research on quality of life (QoL) of school children with specific learning disabilities (SpLD) and their parents is scarce. The present study explores QoL deficits in newly diagnosed children with SpLD and their parents, in comparison to a similar age group of typically developing children. Possible associations between parental and child QoL were statistically explored in both groups of children. 70 newly diagnosed children with SpLD [International Classification of Diseases-10 (ICD-10) criteria] (38 boys, 32 girls, mean age 10.1 years) and a control group of 69 typically developing children of the same age (40 boys, 29 girls, mean age 10.6 years) were recruited. Children were of normal intelligence quotient, attending mainstream schools. Their parents were also recruited so a child's scores could be associated with corresponding parental scores (mother or father). Children's QoL was assessed by the German questionnaire for measuring quality of life in children and adolescents (KINDL(R) ) questionnaire and parental QoL by World Health Organization Quality of Life brief questionnaire (WHOQOL-BREF) of the World Health Organization. Children with SpLD in comparison to typically developing children reported according to the KINDL(R) measurement poorer emotional well-being, lower self-esteem and satisfaction in their relationships with family and friends. Surprisingly, school functioning was not reported by these children as an area of concern. Parents of children with SpLD indicated experiencing lower satisfaction in the WHOQOL-BREF domains of social relationships and environment. Correlational and regression analysis with parental-child QoL scores provided evidence that in the SpLD group, parental scores on WHOQOL-BREF social relationships and psychological health domains could be predictors of the child's emotional well-being, satisfaction with family, friends and school functioning. Stepwise regression analysis verified the effect of parents' WHOQOL-BREF social

  3. Improving learning with science and social studies text using computer-based concept maps for students with disabilities.

    PubMed

    Ciullo, Stephen; Falcomata, Terry S; Pfannenstiel, Kathleen; Billingsley, Glenna

    2015-01-01

    Concept maps have been used to help students with learning disabilities (LD) improve literacy skills and content learning, predominantly in secondary school. However, despite increased access to classroom technology, no previous studies have examined the efficacy of computer-based concept maps to improve learning from informational text for students with LD in elementary school. In this study, we used a concurrent delayed multiple probe design to evaluate the interactive use of computer-based concept maps on content acquisition with science and social studies texts for Hispanic students with LD in Grades 4 and 5. Findings from this study suggest that students improved content knowledge during intervention relative to a traditional instruction baseline condition. Learning outcomes and social validity information are considered to inform recommendations for future research and the feasibility of classroom implementation. © The Author(s) 2014.

  4. Validation of the SCIAN LD-735 wrist blood pressure monitor for home blood pressure monitoring according to the European Society of Hypertension International Protocol revision 2010.

    PubMed

    Kang, Yuan-Yuan; Chen, Qi; Li, Yan; Wang, Ji-Guang

    2016-08-01

    This study aimed to evaluate the accuracy of the automated oscillometric wrist blood pressure monitor SCIAN LD-735 for home blood pressure monitoring according to the International Protocol of the European Society of Hypertension revision 2010. Systolic and diastolic blood pressures were measured sequentially in 33 adult Chinese participants (10 women, mean age 44.8 years) using a mercury sphygmomanometer (two observers) and the SCIAN LD-735 device (one supervisor). A total of 99 pairs of comparisons were obtained from 33 participants for judgments in two parts with three grading phases. The SCIAN LD-735 device achieved the targets in part 1 of the validation study. The number of absolute differences between device and observers within 5, 10, and 15 mmHg was 86/99, 97/99, and 98/99, respectively, for systolic blood pressure and 85/99, 98/99, and 99/99, respectively, for diastolic blood pressure. The device also fulfilled the criteria in part 2 of the validation study. In total, 30 and 33 participants for systolic and diastolic blood pressure, respectively, had at least two of the three device-observer differences within 5 mmHg (required ≥24). No participant had all of the three device-observer comparisons greater than 5 mmHg for systolic or diastolic blood pressure. The SCIAN wrist blood pressure monitor LD-735 has passed the requirements of the International Protocol revision 2010, and hence can be recommended for home use in adults.

  5. Comparison and quantitative verification of mapping algorithms for whole genome bisulfite sequencing

    USDA-ARS?s Scientific Manuscript database

    Coupling bisulfite conversion with next-generation sequencing (Bisulfite-seq) enables genome-wide measurement of DNA methylation, but poses unique challenges for mapping. However, despite a proliferation of Bisulfite-seq mapping tools, no systematic comparison of their genomic coverage and quantitat...

  6. HapMap tagSNP transferability in multiple populations: general guidelines

    PubMed Central

    Xing, Jinchuan; Witherspoon, David J.; Watkins, W. Scott; Zhang, Yuhua; Tolpinrud, Whitney; Jorde, Lynn B.

    2008-01-01

    This PDF receipt will only be used as the basis for generating PubMed Central (PMC) documents. PMC documents will be made available for review after conversion (approx. 2–3 weeks time). Any corrections that need to be made will be done at that time. No materials will be released to PMC without the approval of an author. Only the PMC documents will appear on PubMed Central -- this PDF Receipt will not appear on PubMed Central. Linkage disequilibrium (LD) has received much recent attention because of its value in localizing disease-causing genes. Due to the extensive LD between neighboring loci in the human genome, it is believed that a subset of the single nucleotide polymorphisms in a region (tagSNPs) can be selected to capture most of the remaining SNP variants. In this study, we examined LD patterns and HapMap tagSNP transferability in more than 300 individuals. A South Indian and an African Mbuti Pygmy population sample were included to evaluate the performance of HapMap tagSNPs in geographically distinct and genetically isolated populations. Our results show that HapMap tagSNPs selected with r2 >= 0.8 can capture more than 85% of the SNPs in populations that are from the same continental group. Combined tagSNPs from HapMap CEU and CHB+JPT serve as the best reference for the Indian sample. The HapMap YRI are a sufficient reference for tagSNP selection in the Pygmy sample. In addition to our findings, we reviewed over 25 recent studies of tagSNP transferability and propose a general guideline for selecting tagSNPs from HapMap populations. PMID:18482828

  7. Analysis of ligand-protein exchange by Clustering of Ligand Diffusion Coefficient Pairs (CoLD-CoP)

    NASA Astrophysics Data System (ADS)

    Snyder, David A.; Chantova, Mihaela; Chaudhry, Saadia

    2015-06-01

    NMR spectroscopy is a powerful tool in describing protein structures and protein activity for pharmaceutical and biochemical development. This study describes a method to determine weak binding ligands in biological systems by using hierarchic diffusion coefficient clustering of multidimensional data obtained with a 400 MHz Bruker NMR. Comparison of DOSY spectrums of ligands of the chemical library in the presence and absence of target proteins show translational diffusion rates for small molecules upon interaction with macromolecules. For weak binders such as compounds found in fragment libraries, changes in diffusion rates upon macromolecular binding are on the order of the precision of DOSY diffusion measurements, and identifying such subtle shifts in diffusion requires careful statistical analysis. The "CoLD-CoP" (Clustering of Ligand Diffusion Coefficient Pairs) method presented here uses SAHN clustering to identify protein-binders in a chemical library or even a not fully characterized metabolite mixture. We will show how DOSY NMR and the "CoLD-CoP" method complement each other in identifying the most suitable candidates for lysozyme and wheat germ acid phosphatase.

  8. A Comparison of Fuzzy Models in Similarity Assessment of Misregistered Area Class Maps

    NASA Astrophysics Data System (ADS)

    Brown, Scott

    Spatial uncertainty refers to unknown error and vagueness in geographic data. It is relevant to land change and urban growth modelers, soil and biome scientists, geological surveyors and others, who must assess thematic maps for similarity, or categorical agreement. In this paper I build upon prior map comparison research, testing the effectiveness of similarity measures on misregistered data. Though several methods compare uncertain thematic maps, few methods have been tested on misregistration. My objective is to test five map comparison methods for sensitivity to misregistration, including sub-pixel errors in both position and rotation. Methods included four fuzzy categorical models: fuzzy kappa's model, fuzzy inference, cell aggregation, and the epsilon band. The fifth method used conventional crisp classification. I applied these methods to a case study map and simulated data in two sets: a test set with misregistration error, and a control set with equivalent uniform random error. For all five methods, I used raw accuracy or the kappa statistic to measure similarity. Rough-set epsilon bands report the most similarity increase in test maps relative to control data. Conversely, the fuzzy inference model reports a decrease in test map similarity.

  9. Mapping of yellow mosaic virus (YMV) resistance in soybean (Glycine max L. Merr.) through association mapping approach.

    PubMed

    Kumar, Bhupender; Talukdar, Akshay; Verma, Khushbu; Bala, Indu; Harish, G D; Gowda, Sarmrat; Lal, S K; Sapra, R L; Singh, K P

    2015-02-01

    Yellow Mosaic Virus (YMV) is a serious disease of soybean. Resistance to YMV was mapped in 180 soybean genotypes through association mapping approach using 121 simple sequence repeats (SSR) and four resistance gene analogue (RGA)-based markers. The association mapping population (AMP) (96 genotypes) and confirmation population (CP) (84 genotypes) was tested for resistance to YMV at hot-spot consecutively for 3 years (2007-2009). The genotypes exhibited significant variability for YMV resistance (P < 0.01). Molecular genotyping and population structure analysis with 'admixture' co-ancestry model detected seven optimal sub-populations in the AMP. Linkage disequilibrium (LD) between the markers extended up to 35 and 10 cM with r2 > 0.15, and >0.25, respectively. The 4 RGA-based markers showed no association with YMV resistance. Two SSR markers, Satt301 and GMHSP179 on chromosome 17 were found to be in significant LD with YMV resistance. Contingency Chi-square test confirmed the association (P < 0.01) and the utility of the markers was validated in the CP. It would pave the way for marker assisted selection for YMV resistance in soybean. This is the first report of its kind in soybean.

  10. Colleges or Universities with L.D. Programs.

    ERIC Educational Resources Information Center

    Association for Children and Adults with Learning Disabilities, Pittsburgh, PA.

    The listing describes approximately 50 colleges and universities with programs for learning disabled (LD) students. Descriptions are arranged alphabetically by state and include the college's name, address, telephone number, name of contact person, and brief description. Among services listed are textbooks on cassette; academic, career, and…

  11. Uncertainties in ecosystem service maps: a comparison on the European scale.

    PubMed

    Schulp, Catharina J E; Burkhard, Benjamin; Maes, Joachim; Van Vliet, Jasper; Verburg, Peter H

    2014-01-01

    Safeguarding the benefits that ecosystems provide to society is increasingly included as a target in international policies. To support such policies, ecosystem service maps are made. However, there is little attention for the accuracy of these maps. We made a systematic review and quantitative comparison of ecosystem service maps on the European scale to generate insights in the uncertainty of ecosystem service maps and discuss the possibilities for quantitative validation. Maps of climate regulation and recreation were reasonably similar while large uncertainties among maps of erosion protection and flood regulation were observed. Pollination maps had a moderate similarity. Differences among the maps were caused by differences in indicator definition, level of process understanding, mapping aim, data sources and methodology. Absence of suitable observed data on ecosystem services provisioning hampers independent validation of the maps. Consequently, there are, so far, no accurate measures for ecosystem service map quality. Policy makers and other users need to be cautious when applying ecosystem service maps for decision-making. The results illustrate the need for better process understanding and data acquisition to advance ecosystem service mapping, modelling and validation.

  12. Multilocus association mapping using variable-length Markov chains.

    PubMed

    Browning, Sharon R

    2006-06-01

    I propose a new method for association-based gene mapping that makes powerful use of multilocus data, is computationally efficient, and is straightforward to apply over large genomic regions. The approach is based on the fitting of variable-length Markov chain models, which automatically adapt to the degree of linkage disequilibrium (LD) between markers to create a parsimonious model for the LD structure. Edges of the fitted graph are tested for association with trait status. This approach can be thought of as haplotype testing with sophisticated windowing that accounts for extent of LD to reduce degrees of freedom and number of tests while maximizing information. I present analyses of two published data sets that show that this approach can have better power than single-marker tests or sliding-window haplotypic tests.

  13. Multilocus Association Mapping Using Variable-Length Markov Chains

    PubMed Central

    Browning, Sharon R.

    2006-01-01

    I propose a new method for association-based gene mapping that makes powerful use of multilocus data, is computationally efficient, and is straightforward to apply over large genomic regions. The approach is based on the fitting of variable-length Markov chain models, which automatically adapt to the degree of linkage disequilibrium (LD) between markers to create a parsimonious model for the LD structure. Edges of the fitted graph are tested for association with trait status. This approach can be thought of as haplotype testing with sophisticated windowing that accounts for extent of LD to reduce degrees of freedom and number of tests while maximizing information. I present analyses of two published data sets that show that this approach can have better power than single-marker tests or sliding-window haplotypic tests. PMID:16685642

  14. Measuring the potency labelling of onabotulinumtoxinA (Botox(®)) and incobotulinumtoxinA (Xeomin (®)) in an LD50 assay.

    PubMed

    Dressler, Dirk; Mander, Gerd; Fink, Klaus

    2012-01-01

    The biological potency of botulinum toxin (BT) drugs is determined by a standardised LD50 assay. However, the potency labelling varies vary amongst different BT drugs. One reason for this may be differences in the LD50 assays applied. When five unexpired batches of onabotulinumtoxinA (Botox(®)) and incobotulinumtoxinA (Xeomin(®)) are compared in the Xeomin(®) batch release assay, the potency variability of both BT drugs fell within the range allowed by the European Pharmacopoiea. Statistical analyses failed to detect differences in the potency labelling of both products. Although the existence of a conversion ratio has been questioned recently, our experimental data are in line with previous clinical experience showing that Botox(®) and Xeomin(®) can be compared using a 1:1 conversion ratio. Identical potency labelling allows easy exchange of both BT drugs in a therapeutic setting, and direct comparison of efficacy, adverse effects and costs.

  15. A Nationwide Epidemiologic Modeling Study of LD: Risk, Protection, and Unintended Impact

    ERIC Educational Resources Information Center

    McDermott, Paul A.; Goldberg, Michelle M.; Watkins, Marley W.; Stanley, Jeanne L.; Glutting, Joseph J.

    2006-01-01

    Through multiple logistic regression modeling, this article explores the relative importance of risk and protective factors associated with learning disabilities (LD). A representative national sample of 6- to 17-year-old students (N = 1,268) was drawn by random stratification and classified by the presence versus absence of LD in reading,…

  16. LD Score Regression Distinguishes Confounding from Polygenicity in Genome-Wide Association Studies

    PubMed Central

    Bulik-Sullivan, Brendan K.; Loh, Po-Ru; Finucane, Hilary; Ripke, Stephan; Yang, Jian; Patterson, Nick; Daly, Mark J.; Price, Alkes L.; Neale, Benjamin M.

    2015-01-01

    Both polygenicity (i.e., many small genetic effects) and confounding biases, such as cryptic relatedness and population stratification, can yield an inflated distribution of test statistics in genome-wide association studies (GWAS). However, current methods cannot distinguish between inflation from true polygenic signal and bias. We have developed an approach, LD Score regression, that quantifies the contribution of each by examining the relationship between test statistics and linkage disequilibrium (LD). The LD Score regression intercept can be used to estimate a more powerful and accurate correction factor than genomic control. We find strong evidence that polygenicity accounts for the majority of test statistic inflation in many GWAS of large sample size. PMID:25642630

  17. Impact of enhancin genes on potency of LdNPV in gypsy moth

    Treesearch

    Kelli Hoover; Jim McNeil; Alyssa Gendron; James. Slavicek

    2011-01-01

    Lymantria dispar nucleopolyhedrovirus (LdNPV) contains two enhancin genes (E1 and E2) encoding proteases that degrade key peritrophic matrix (PM) proteins, thereby promoting infection and mortality by the virus. In a previous study, gypsy moth larvae inoculated with LdNPV in which both E1 and E2 were deleted (double deletion virus) resulted in a non-...

  18. Nils Silfverskiöld (1888-1957) and gastrocnemius contracture.

    PubMed

    Singh, Dishan

    2013-06-01

    Nils Silfverskiöld was an orthopaedic surgeon, Swedish aristocrat, bon vivant, Olympic gymnast, left wing intellectual and anti-Nazi who described that the force required to dorsiflex the ankle in spastic equinus contracture decreased with knee flexion in isolated gastrocnemius contracture. He advocated detaching the origins of the gastrocnemii from the femur and reattaching them to the tibia. The Silfverskiöld knee flexion test has now also been adapted to distinguish between isolated gastrocnemius contracture and combined shortening of the gastrocnemius-soleus complex in non-spastic contracture by measuring the range of ankle dorsiflexion with the knee flexed and the knee straight. Copyright © 2012 European Foot and Ankle Society. Published by Elsevier Ltd. All rights reserved.

  19. Using Graphic Organizers to Teach Content Area Material to Students with Learning Disabilities

    ERIC Educational Resources Information Center

    Dexter, Douglas D.

    2012-01-01

    A pretest-posttest comparison group design was used to investigate the effects of a semantic mapping lesson plus visual display versus a semantic mapping lesson alone on adolescents' with learning disabilities (LD) ability to gain and maintain factual knowledge from expository social studies material. In addition, a posttest only comparison group…

  20. High-power and highly reliable 638-nm band BA-LD for CW operation

    NASA Astrophysics Data System (ADS)

    Nishida, Takehiro; Kuramoto, Kyosuke; Abe, Shinji; Kusunoki, Masatsugu; Miyashita, Motoharu; Yagi, Tetsuya

    2018-02-01

    High-power laser diodes (LDs) are strongly demanded as light sources of display applications. In multiple spatial light modulator-type projectors or liquid crystal displays, the light source LDs are operated under CW condition. The high-power 638-nm band broad-area LD for CW operation was newly developed. The LD consisted of two stripes with each width of 75 μm to reduce both an optical power density at a front facet and a threshold current. The newly improved epitaxial technology was also applied to the LD to suppress an electron overflow from an active layer. The LD showed superior output characteristics, such as output of 1.77 W at case temperature of 55 °C with wall plug efficiency (WPE) of 23%, which was improved by 40% compared with the current product. The peak WPE at 25 °C reached 40.6% under the output power of 2.37 W, CW, world highest.

  1. Mapping asthma-associated variants in admixed populations

    PubMed Central

    Mersha, Tesfaye B.

    2015-01-01

    Admixed populations arise when two or more previously isolated populations interbreed. Mapping asthma susceptibility loci in an admixed population using admixture mapping (AM) involves screening the genome of individuals of mixed ancestry for chromosomal regions that have a higher frequency of alleles from a parental population with higher asthma risk as compared with parental population with lower asthma risk. AM takes advantage of the admixture created in populations of mixed ancestry to identify genomic regions where an association exists between genetic ancestry and asthma (in contrast to between the genotype of the marker and asthma). The theory behind AM is that chromosomal segments of affected individuals contain a significantly higher-than-average proportion of alleles from the high-risk parental population and thus are more likely to harbor disease–associated loci. Criteria to evaluate the applicability of AM as a gene mapping approach include: (1) the prevalence of the disease differences in ancestral populations from which the admixed population was formed; (2) a measurable difference in disease-causing alleles between the parental populations; (3) reduced linkage disequilibrium (LD) between unlinked loci across chromosomes and strong LD between neighboring loci; (4) a set of markers with noticeable allele-frequency differences between parental populations that contributes to the admixed population (single nucleotide polymorphisms (SNPs) are the markers of choice because they are abundant, stable, relatively cheap to genotype, and informative with regard to the LD structure of chromosomal segments); and (5) there is an understanding of the extent of segmental chromosomal admixtures and their interactions with environmental factors. Although genome-wide association studies have contributed greatly to our understanding of the genetic components of asthma, the large and increasing degree of admixture in populations across the world create many challenges

  2. Molecular diversity and association mapping of fiber quality traits in exotic G. hirsutum L. germplasm.

    PubMed

    Abdurakhmonov, I Y; Kohel, R J; Yu, J Z; Pepper, A E; Abdullaev, A A; Kushanov, F N; Salakhutdinov, I B; Buriev, Z T; Saha, S; Scheffler, B E; Jenkins, J N; Abdukarimov, A

    2008-12-01

    The narrow genetic base of cultivated cotton germplasm is hindering the cotton productivity worldwide. Although potential genetic diversity exists in Gossypium genus, it is largely 'underutilized' due to photoperiodism and the lack of innovative tools to overcome such challenges. The application of linkage disequilibrium (LD)-based association mapping is an alternative powerful molecular tool to dissect and exploit the natural genetic diversity conserved within cotton germplasm collections, greatly accelerating still 'lagging' cotton marker-assisted selection (MAS) programs. However, the extent of genome-wide linkage disequilibrium (LD) has not been determined in cotton. We report the extent of genome-wide LD and association mapping of fiber quality traits by using a 95 core set of microsatellite markers in a total of 285 exotic Gossypium hirsutum accessions, comprising of 208 landrace stocks and 77 photoperiodic variety accessions. We demonstrated the existence of useful genetic diversity within exotic cotton germplasm. In this germplasm set, 11-12% of SSR loci pairs revealed a significant LD. At the significance threshold (r(2)>/=0.1), a genome-wide average of LD declines within the genetic distance at <10 cM in the landrace stocks germplasm and >30 cM in variety germplasm. Genome wide LD at r(2)>/=0.2 was reduced on average to approximately 1-2 cM in the landrace stock germplasm and 6-8 cM in variety germplasm, providing evidence of the potential for association mapping of agronomically important traits in cotton. We observed significant population structure and relatedness in assayed germplasm. Consequently, the application of the mixed liner model (MLM), considering both kinship (K) and population structure (Q) detected between 6% and 13% of SSR markers associated with the main fiber quality traits in cotton. Our results highlight for the first time the feasibility and potential of association mapping, with consideration of the population structure and

  3. Analysis of ligand-protein exchange by Clustering of Ligand Diffusion Coefficient Pairs (CoLD-CoP).

    PubMed

    Snyder, David A; Chantova, Mihaela; Chaudhry, Saadia

    2015-06-01

    NMR spectroscopy is a powerful tool in describing protein structures and protein activity for pharmaceutical and biochemical development. This study describes a method to determine weak binding ligands in biological systems by using hierarchic diffusion coefficient clustering of multidimensional data obtained with a 400 MHz Bruker NMR. Comparison of DOSY spectrums of ligands of the chemical library in the presence and absence of target proteins show translational diffusion rates for small molecules upon interaction with macromolecules. For weak binders such as compounds found in fragment libraries, changes in diffusion rates upon macromolecular binding are on the order of the precision of DOSY diffusion measurements, and identifying such subtle shifts in diffusion requires careful statistical analysis. The "CoLD-CoP" (Clustering of Ligand Diffusion Coefficient Pairs) method presented here uses SAHN clustering to identify protein-binders in a chemical library or even a not fully characterized metabolite mixture. We will show how DOSY NMR and the "CoLD-CoP" method complement each other in identifying the most suitable candidates for lysozyme and wheat germ acid phosphatase. Copyright © 2015 Elsevier Inc. All rights reserved.

  4. Effects of Low-Dose Mindfulness-Based Stress Reduction (MBSR-ld) on Working Adults

    ERIC Educational Resources Information Center

    Klatt, Maryanna D.; Buckworth, Janet; Malarkey, William B.

    2009-01-01

    Mindfulness-based stress reduction (MBSR) has produced behavioral, psychological, and physiological benefits, but these programs typically require a substantial time commitment from the participants. This study assessed the effects of a shortened (low-dose [ld]) work-site MBSR intervention (MBSR-ld) on indicators of stress in healthy working…

  5. The acute lethal dose 50 (LD50) of caffeine in albino rats.

    PubMed

    Adamson, Richard H

    2016-10-01

    An acute LD50 is a statistically derived amount of a substance that can be expected to cause death in 50% of the animals when given by a specified route as a single dose and the animals observed for a specified time period. Although conducting routine acute toxicity testing in rodents has been criticized, it can serve useful functions and also have practical implications. Material safety data sheets (MSDS) will reflect the acute toxicity of a substance and may require workers to wear protective gear, if appropriate, based on the LD50. There is no information in the scientific published literature which calculates a mean LD50 and standard deviation for caffeine administered orally to rats, using studies performed under good laboratory practice (GLP) or equivalent. This report does that and should be useful to manufacturers, packagers, transporters and regulators of this material. Using data from studies that are reproducible and reliable, the most accurate estimate of the acute LD50 of caffeine administered orally in male albino rats is hereby reported to be 367/mg/kg. Copyright © 2016 Elsevier Inc. All rights reserved.

  6. PGRP-LD mediates A. stephensi vector competency by regulating homeostasis of microbiota-induced peritrophic matrix synthesis

    PubMed Central

    Song, Xiumei; Wang, Mengfei; Dong, Li

    2018-01-01

    Peptidoglycan recognition proteins (PGRPs) and commensal microbes mediate pathogen infection outcomes in insect disease vectors. Although PGRP-LD is retained in multiple vectors, its role in host defense remains elusive. Here we report that Anopheles stephensi PGRP-LD protects the vector from malaria parasite infection by regulating gut homeostasis. Specifically, knock down of PGRP-LD (dsLD) increased susceptibility to Plasmodium berghei infection, decreased the abundance of gut microbiota and changed their spatial distribution. This outcome resulted from a change in the structural integrity of the peritrophic matrix (PM), which is a chitinous and proteinaceous barrier that lines the midgut lumen. Reduction of microbiota in dsLD mosquitoes due to the upregulation of immune effectors led to dysregulation of PM genes and PM fragmentation. Elimination of gut microbiota in antibiotic treated mosquitoes (Abx) led to PM loss and increased vectorial competence. Recolonization of Abx mosquitoes with indigenous Enterobacter sp. restored PM integrity and decreased mosquito vectorial capacity. Silencing PGRP-LD in mosquitoes without PM didn’t influence their vector competence. Our results indicate that PGPR-LD protects the gut microbiota by preventing hyper-immunity, which in turn promotes PM structurally integrity. The intact PM plays a key role in limiting P. berghei infection. PMID:29489896

  7. A linked GeoData map for enabling information access

    USGS Publications Warehouse

    Powell, Logan J.; Varanka, Dalia E.

    2018-01-10

    attributed Resource Description Framework (RDF) serializations of linked data for mapping. The proof-of-concept focuses on accessing triple data from visual elements of a geographic map as the interface to the MKB. The map interface is embedded with other essential functions such as SPARQL Protocol and RDF Query Language (SPARQL) data query endpoint services and reasoning capabilities of Apache Marmotta (Apache Software Foundation, 2017). An RDF database of the Geographic Names Information System (GNIS), which contains official names of domestic feature in the United States, was linked to a county data layer from The National Map of the U.S. Geological Survey. The county data are part of a broader Government Units theme offered to the public as Esri shapefiles. The shapefile used to draw the map itself was converted to a geographic-oriented JavaScript Object Notation (JSON) (GeoJSON) format and linked through various properties with a linked geodata version of the GNIS database called “GNIS–LD” (Butler and others, 2016; B. Regalia and others, University of California-Santa Barbara, written commun., 2017). The GNIS–LD files originated in Terse RDF Triple Language (Turtle) format but were converted to a JSON format specialized in linked data, “JSON–LD” (Beckett and Berners-Lee, 2011; Sorny and others, 2014). The GNIS–LD database is composed of roughly three predominant triple data graphs: Features, Names, and History. The graphs include a set of namespace prefixes used by each of the attributes. Predefining the prefixes made the conversion to the JSON–LD format simple to complete because Turtle and JSON–LD are variant specifications of the basic RDF concept.To convert a shapefile into GeoJSON format to capture the geospatial coordinate geometry objects, an online converter, Mapshaper, was used (Bloch, 2013). To convert the Turtle files, a custom converter written in Java reconstructs the files by parsing each grouping of attributes belonging to one subject

  8. Comparison of traditional burn wound mapping with a computerized program.

    PubMed

    Williams, James F; King, Booker T; Aden, James K; Serio-Melvin, Maria; Chung, Kevin K; Fenrich, Craig A; Salinas, José; Renz, Evan M; Wolf, Steven E; Blackbourne, Lorne H; Cancio, Leopoldo C

    2013-01-01

    Accurate burn estimation affects the use of burn resuscitation formulas and treatment strategies, and thus can affect patient outcomes. The objective of this process-improvement project was to compare the accuracy of a computer-based burn mapping program, WoundFlow (WF), with the widely used hand-mapped Lund-Browder (LB) diagram. Manikins with various burn representations (from 1% to more than 60% TBSA) were used for comparison of the WF system and LB diagrams. Burns were depicted on the manikins using red vinyl adhesive. Healthcare providers responsible for mapping of burn patients were asked to perform burn mapping of the manikins. Providers were randomized to either an LB or a WF group. Differences in the total map area between groups were analyzed. Also, direct measurements of the burn representations were taken and compared with LB and WF results. The results of 100 samples, compared using Bland-Altman analysis, showed no difference between the two methods. WF was as accurate as LB mapping for all burn surface areas. WF may be additionally beneficial in that it can track daily progress until complete wound closure, and can automatically calculate burn size, thus decreasing the chances of mathematical errors.

  9. Can Social Stories Enhance the Interpersonal Conflict Resolution Skills of Children with LD?

    ERIC Educational Resources Information Center

    Kalyva, Efrosini; Agaliotis, Ioannis

    2009-01-01

    Since many children with learning disabilities (LD) face interpersonal conflict resolution problems, this study examines the efficacy of social stories in helping them choose more appropriate interpersonal conflict resolution strategies. A social story was recorded and played to the 31 children with LD in the experimental group twice a week for a…

  10. Introducing Algebra through the Graphical Representation of Functions: A Study among LD Students

    ERIC Educational Resources Information Center

    Sauriol, Jennifer

    2013-01-01

    This longitudinal study evaluates the impact of a new Algebra 1 course at a High School for language-based learning-disabled (LD) students. The new course prioritized the teaching of relationship graphs and functions as an introduction to algebra. Across three studies, the dissertation documents and evaluates the progress made by LD high school…

  11. Genetic Structure, Linkage Disequilibrium and Association Mapping of Verticillium Wilt Resistance in Elite Cotton (Gossypium hirsutum L.) Germplasm Population

    PubMed Central

    Zhao, Yunlei; Wang, Hongmei; Chen, Wei; Li, Yunhai

    2014-01-01

    Understanding the population structure and linkage disequilibrium in an association panel can effectively avoid spurious associations and improve the accuracy in association mapping. In this study, one hundred and fifty eight elite cotton (Gossypium hirsutum L.) germplasm from all over the world, which were genotyped with 212 whole genome-wide marker loci and phenotyped with an disease nursery and greenhouse screening method, were assayed for population structure, linkage disequilibrium, and association mapping of Verticillium wilt resistance. A total of 480 alleles ranging from 2 to 4 per locus were identified from all collections. Model-based analysis identified two groups (G1 and G2) and seven subgroups (G1a–c, G2a–d), and differentiation analysis showed that subgroup having a single origin or pedigree was apt to differentiate with those having a mixed origin. Only 8.12% linked marker pairs showed significant LD (P<0.001) in this association panel. The LD level for linked markers is significantly higher than that for unlinked markers, suggesting that physical linkage strongly influences LD in this panel, and LD level was elevated when the panel was classified into groups and subgroups. The LD decay analysis for several chromosomes showed that different chromosomes showed a notable change in LD decay distances for the same gene pool. Based on the disease nursery and greenhouse environment, 42 marker loci associated with Verticillium wilt resistance were identified through association mapping, which widely were distributed among 15 chromosomes. Among which 10 marker loci were found to be consistent with previously identified QTLs and 32 were new unreported marker loci, and QTL clusters for Verticillium wilt resistanc on Chr.16 were also proved in our study, which was consistent with the strong linkage in this chromosome. Our results would contribute to association mapping and supply the marker candidates for marker-assisted selection of Verticillium wilt

  12. Cheap streak camera based on the LD-S-10 intensifier tube

    NASA Astrophysics Data System (ADS)

    Dashevsky, Boris E.; Krutik, Mikhail I.; Surovegin, Alexander L.

    1992-01-01

    Basic properties of a new streak camera and its test results are reported. To intensify images on its screen, we employed modular G1 tubes, the LD-A-1.0 and LD-A-0.33, enabling magnification of 1.0 and 0.33, respectively. If necessary, the LD-A-0.33 tube may be substituted by any other image intensifier of the LDA series, the choice to be determined by the size of the CCD matrix with fiber-optical windows. The reported camera employs a 12.5- mm-long CCD strip consisting of 1024 pixels, each 12 X 500 micrometers in size. Registered radiation was imaged on a 5 X 0.04 mm slit diaphragm tightly connected with the LD-S- 10 fiber-optical input window. Electrons escaping the cathode are accelerated in a 5 kV electric field and focused onto a phosphor screen covering a fiber-optical plate as they travel between deflection plates. Sensitivity of the latter was 18 V/mm, which implies that the total deflecting voltage was 720 V per 40 mm of the screen surface, since reversed-polarity scan pulses +360 V and -360 V were applied across the deflection plate. The streak camera provides full scan times over the screen of 15, 30, 50, 100, 250, and 500 ns. Timing of the electrically or optically driven camera was done using a 10 ns step-controlled-delay (0 - 500 ns) circuit.

  13. Validation of the HONSUN LD-578 blood pressure monitor for home blood pressure monitoring according to the European Society of Hypertension International Protocol.

    PubMed

    Zhang, Yi; Wang, Jie; Huang, Qi-Fang; Sheng, Chang-Sheng; Li, Yan; Wang, Ji-Guang

    2009-06-01

    This study aimed to evaluate the accuracy of the automated oscillometric upper arm blood pressure monitor LD-578 (HONSUN Group, Shanghai, China) for home blood pressure monitoring according to the International Protocol. Systolic and diastolic blood pressures were sequentially measured in 33 adult Chinese using a mercury sphygmomanometer (two observers) and the LD-578 device (one supervisor). Ninety-nine pairs of comparisons were obtained from 15 participants in phase 1 and a further 18 participants in phase 2 of the validation study. Data analysis was performed using the ESHIP Analyzer. The LD-578 device successfully passed phase 1 of the validation study with a number of absolute differences between device and observers within 5, 10, and 15 mmHg for at least 32 of 45, 41 of 45, and 45 of 45 measurements (required 25, 35, and 40), respectively. The device also achieved the targets for phase 2.1, with 67 of 99, 90 of 99, and 98 of 99 differences within 5, 10, and 15 mmHg, respectively, for systolic blood pressure, and with 69 of 99, 95 of 99, and 98 of 99 within 5, 10, and 15 mmHg, respectively, for diastolic blood pressure. In phase 2.2, 24 participants had at least two of the three device-observers differences within 5 mmHg (required >or=22) for systolic and diastolic blood pressure. The HONSUN upper arm blood pressure monitor LD-578 can be recommended for home use in adults.

  14. Potential of the insect growth regulator, fluazuron, in the control of Rhipicephalus sanguineus nymphs (Latreille, 1806) (Acari: Ixodidae): determination of the LD95 and LD50.

    PubMed

    de Oliveira, Patrícia Rosa; Calligaris, Izabela Braggião; Roma, Gislaine Cristina; Bechara, Gervásio Henrique; Pizano, Marcos Aparecido; Camargo Mathias, Maria Izabel

    2012-05-01

    Conventional pesticides have suffered two main drawbacks: (a) broad spectrum of action and (b) selection of target species resistant to the different active ingredients. Thus compounds that are less harmful to the environment and to human health, more specific and that do not induce resistance need to be developed. One alternative are insect growth regulators, such as fluazuron. The present study examined the efficacy of fluazuron (active ingredient of the acaricide Acatak®) and the sensitivity of Rhipicephalus sanguineus nymphs exposed to different doses of this chemical, and determined the lethal doses of fluazuron: 95% - LD(95) and 50% - LD(50). Different doses of fluazuron were applied in duplicates on the dorsal region of hosts ("pour on"). Distilled water was used in the control group. On the first day after the treatment with fluazuron, hosts were artificially infested with R. sanguineus nymphs. After engorgement, nymphs were removed, placed on Petri dishes, identified, and maintained in BOD incubator for 15days. Dead R. sanguineus nymphs after the treatment with 13 different doses of fluazuron were quantified and the LD(95) was estimated to be 100mg/kg and LD(50), 19.544mg/kg (12.478-22.636), with a confidence interval of 95%. Nymphs of R. sanguineus were sensitive to fluazuron at various levels, indicating that this insect growth regulator (IGR) may be used to control this parasite in this stage of its biological cycle, reducing the significant damage it causes. Copyright © 2012 Elsevier Inc. All rights reserved.

  15. Visualization of Learning Scenarios with UML4LD

    ERIC Educational Resources Information Center

    Laforcade, Pierre

    2007-01-01

    Present Educational Modelling Languages are used to formally specify abstract learning scenarios in a machine-interpretable format. Current tooling does not provide teachers/designers with some graphical facilities to help them in reusing existent scenarios. They need human-readable representations. This paper discusses the UML4LD experimental…

  16. GLOBAL INTEGRATED ISR: A BETTER ORGANIZATIONAL CONSTRUCT FOR AIR FORCE LD/HD ISR

    DTIC Science & Technology

    2017-04-06

    Mr. Kevin S. Williams, LeMay Center Intelligence Directorate, United States Air Force 6 April 2017 DISTRIBUTION A. Approved for public...E-8 intelligence , surveillance, and reconnaissance (ISR) aircraft it refers to as Low Density/High Demand (LD/HD). Current worldwide demand for LD...management GFMAP Global Force Management Allocation Plan GIISR global integrated intelligence , surveillance, and reconnaissance ISIS Islamic

  17. Columbo in the Classroom: An LD [Learning Disability] Experience in the Community College Setting.

    ERIC Educational Resources Information Center

    Matuskey, Patricia Varan; Losiewicz, Joan Michele

    Guidelines are provided for faculty working with learning disabled (LD) students in the community college. After introductory material, the LD student is described as an individual of average or above average intelligence who demonstrates a significant discrepancy between intelligence and performance level because of problems in taking in,…

  18. Differential Diagnosis of Dysgraphia, Dyslexia, and OWL LD: Behavioral and Neuroimaging Evidence

    PubMed Central

    Berninger, Virginia W.; Richards, Todd; Abbott, Robert D.

    2015-01-01

    In Study 1, children in grades 4 to 9 (N= 88, 29 females and 59 males) with persisting reading and/or writing disabilities, despite considerable prior specialized instruction in and out of school, were given an evidence-based comprehensive assessment battery at the university while parents completed questionnaires regarding past and current history of language learning and other difficulties. Profiles (patterns) of normed measures for different levels of oral and written language used to categorize participants into diagnostic groups for dysgraphia (impaired subword handwriting) (n=26), dyslexia (impaired word spelling and reading) (n=38), or oral and written language learning disability OWL LD (impaired oral and written syntax comprehension and expression) (n=13) or control oral and written language learners (OWLs) without SLDs (n=11) were consistent withreported history. Impairments in working memory components supporting language learning were also examined. In Study 2, right handed children from Study 1 who did not wear braces (controls, n=9, dysgraphia, n= 14; dyslexia, n=17, OWL LD, n=5) completed an fMRI functional connectivity brain imaging study in which they performed a word-specific spelling judgment task, which is related to both word reading and spelling, and may be impaired in dysgraphia, dyslexia, and OWL LD for different reasons. fMRI functional connectivity from 4 seed points in brain locations involved in written word processing to other brain regions also differentiated dysgraphia, dyslexia, and OWL LD; both specific regions to which connected and overall number of functional connections differed. Thus, results provide converging neurological and behavioral evidence, for dysgraphia, dyslexia, and OWL LD being different, diagnosable specific learning disabilities (SLDs) for persisting written language problems during middle childhood and early adolescence. Translation of the research findings into practice at policy and administrative levels and

  19. Uneven recombination rate and linkage disequilibrium across a reference SNP map for common bean (Phaseolus vulgaris L.)

    PubMed Central

    Farmer, Andrew D.; Huang, Wei; Ambachew, Daniel; Penmetsa, R. Varma; Carrasquilla-Garcia, Noelia; Assefa, Teshale; Cannon, Steven B.

    2018-01-01

    Recombination (R) rate and linkage disequilibrium (LD) analyses are the basis for plant breeding. These vary by breeding system, by generation of inbreeding or outcrossing and by region in the chromosome. Common bean (Phaseolus vulgaris L.) is a favored food legume with a small sequenced genome (514 Mb) and n = 11 chromosomes. The goal of this study was to describe R and LD in the common bean genome using a 768-marker array of single nucleotide polymorphisms (SNP) based on Trans-legume Orthologous Group (TOG) genes along with an advanced-generation Recombinant Inbred Line reference mapping population (BAT93 x Jalo EEP558) and an internationally available diversity panel. A whole genome genetic map was created that covered all eleven linkage groups (LG). The LGs were linked to the physical map by sequence data of the TOGs compared to each chromosome sequence of common bean. The genetic map length in total was smaller than for previous maps reflecting the precision of allele calling and mapping with SNP technology as well as the use of gene-based markers. A total of 91.4% of TOG markers had singleton hits with annotated Pv genes and all mapped outside of regions of resistance gene clusters. LD levels were found to be stronger within the Mesoamerican genepool and decay more rapidly within the Andean genepool. The recombination rate across the genome was 2.13 cM / Mb but R was found to be highly repressed around centromeres and frequent outside peri-centromeric regions. These results have important implications for association and genetic mapping or crop improvement in common bean. PMID:29522524

  20. Analogical-mapping-based comparison tasks as a scaffold for argumentation

    NASA Astrophysics Data System (ADS)

    Emig, Brandon R.

    Given the centrality of the argumentation process to science and consequent importance to science education, inviting science students to engage in argumentation and scaffolding that argumentation in order that it lead to learning and not frustration is important. The present research invites small groups of science content learners (54 preservice elementary teachers at a large research university) to use analogical-mapping-based comparison tasks in service of argumentation to determine which of two possible analogues, in this case simple machines, is most closely related to a third. These activities and associated instruction scaffolded student small-groups' argumentation in four ways: (1) supporting new analogical correspondences on the heels of prior correspondences; (2) discerning definitions and descriptions for simple machine elements; (3) identifying and dealing with ambiguity in potential correspondences; and (4) making reflections on prior analogical correspondences in service of their final arguments. Analogical-mapping-based comparison activities scaffolded student small groups both in their argumentation and in content learning about simple machines. Implications, limitations, and directions for future related research are also discussed.

  1. Recent history of artificial outcrossing facilitates whole-genome association mapping in elite inbred crop varieties

    PubMed Central

    Rostoks, Nils; Ramsay, Luke; MacKenzie, Katrin; Cardle, Linda; Bhat, Prasanna R.; Roose, Mikeal L.; Svensson, Jan T.; Stein, Nils; Varshney, Rajeev K.; Marshall, David F.; Graner, Andreas; Close, Timothy J.; Waugh, Robbie

    2006-01-01

    Genomewide association studies depend on the extent of linkage disequilibrium (LD), the number and distribution of markers, and the underlying structure in populations under study. Outbreeding species generally exhibit limited LD, and consequently, a very large number of markers are required for effective whole-genome association genetic scans. In contrast, several of the world's major food crops are self-fertilizing inbreeding species with narrow genetic bases and theoretically extensive LD. Together these are predicted to result in a combination of low resolution and a high frequency of spurious associations in LD-based studies. However, inbred elite plant varieties represent a unique human-induced pseudooutbreeding population that has been subjected to strong selection for advantageous alleles. By assaying 1,524 genomewide SNPs we demonstrate that, after accounting for population substructure, the level of LD exhibited in elite northwest European barley, a typical inbred cereal crop, can be effectively exploited to map traits by using whole-genome association scans with several hundred to thousands of biallelic SNPs. PMID:17085595

  2. A comparison of contour maps derived from independent methods of measuring lunar magnetic fields

    NASA Technical Reports Server (NTRS)

    Lichtenstein, B. R.; Coleman, P. J., Jr.; Russell, C. T.

    1978-01-01

    Computer-generated contour maps of strong lunar remanent magnetic fields are presented and discussed. The maps, obtained by previously described (Eliason and Soderblom, 1977) techniques, are derived from a variety of direct and indirect measurements from Apollo 15 and 16 and Explorer 35 magnetometer and electron reflection data. A common display format is used to facilitate comparison of the maps over regions of overlapping coverage. Most large scale features of either weak or strong magnetic field regions are found to correlate fairly well on all the maps considered.

  3. A financial impact assessment of LD 1725 : stream crossings.

    DOT National Transportation Integrated Search

    2011-01-01

    This report looks at the potential financial impact of LD 1725, a Maine Legislative bill that was : considered during the second regular session of the 124th Maine Legislature. The bill would : affect the design & construction of an estimated 30,000 ...

  4. Classroom Behavior Patterns of EMH, LD, and EH Students.

    ERIC Educational Resources Information Center

    McKinney, James D.; Forman, Susan G.

    1982-01-01

    Investigated whether classroom teachers could differentiate among educable mentally handicapped (EMH), learning disabled (LD), and emotionally handicapped (EH) students based on perceptions of classroom behavior patterns. Ratings from classroom behavior inventory scales revealed that EMH students were distinguished by low intelligence, creativity,…

  5. Influence of Nose Shape and L/D Ratio on Projectile Penetration in Frozen Soil

    DTIC Science & Technology

    1980-04-01

    unexpected when soil properties are considered. Decreasing temperature below -10%C by 100 or 150 has little effect on the constitutive properties of... Effect ....... ............ ............. 10 L/D Influence .......................... .10 Target Temperature Effects ...10. Effect of L/D ratio and mass on flat nose pro- jectile penetration (the solid lines are least square curve fits to the data

  6. Singapore Genome Variation Project: a haplotype map of three Southeast Asian populations.

    PubMed

    Teo, Yik-Ying; Sim, Xueling; Ong, Rick T H; Tan, Adrian K S; Chen, Jieming; Tantoso, Erwin; Small, Kerrin S; Ku, Chee-Seng; Lee, Edmund J D; Seielstad, Mark; Chia, Kee-Seng

    2009-11-01

    The Singapore Genome Variation Project (SGVP) provides a publicly available resource of 1.6 million single nucleotide polymorphisms (SNPs) genotyped in 268 individuals from the Chinese, Malay, and Indian population groups in Southeast Asia. This online database catalogs information and summaries on genotype and phased haplotype data, including allele frequencies, assessment of linkage disequilibrium (LD), and recombination rates in a format similar to the International HapMap Project. Here, we introduce this resource and describe the analysis of human genomic variation upon agglomerating data from the HapMap and the Human Genome Diversity Project, providing useful insights into the population structure of the three major population groups in Asia. In addition, this resource also surveyed across the genome for variation in regional patterns of LD between the HapMap and SGVP populations, and for signatures of positive natural selection using two well-established metrics: iHS and XP-EHH. The raw and processed genetic data, together with all population genetic summaries, are publicly available for download and browsing through a web browser modeled with the Generic Genome Browser.

  7. Singapore Genome Variation Project: A haplotype map of three Southeast Asian populations

    PubMed Central

    Teo, Yik-Ying; Sim, Xueling; Ong, Rick T.H.; Tan, Adrian K.S.; Chen, Jieming; Tantoso, Erwin; Small, Kerrin S.; Ku, Chee-Seng; Lee, Edmund J.D.; Seielstad, Mark; Chia, Kee-Seng

    2009-01-01

    The Singapore Genome Variation Project (SGVP) provides a publicly available resource of 1.6 million single nucleotide polymorphisms (SNPs) genotyped in 268 individuals from the Chinese, Malay, and Indian population groups in Southeast Asia. This online database catalogs information and summaries on genotype and phased haplotype data, including allele frequencies, assessment of linkage disequilibrium (LD), and recombination rates in a format similar to the International HapMap Project. Here, we introduce this resource and describe the analysis of human genomic variation upon agglomerating data from the HapMap and the Human Genome Diversity Project, providing useful insights into the population structure of the three major population groups in Asia. In addition, this resource also surveyed across the genome for variation in regional patterns of LD between the HapMap and SGVP populations, and for signatures of positive natural selection using two well-established metrics: iHS and XP-EHH. The raw and processed genetic data, together with all population genetic summaries, are publicly available for download and browsing through a web browser modeled with the Generic Genome Browser. PMID:19700652

  8. Students' Perceptions of a Postsecondary LD/ADHD Support Program

    ERIC Educational Resources Information Center

    Mytkowicz, Patricia; Goss, Diane

    2012-01-01

    Colleges are seeking ways to better serve the growing population of students with learning disabilities (LD) and/or Attention Deficit Hyperactivity Disorder (ADHD). In making decisions about how to best facilitate students' success, it is important to listen to their voices as they describe their experiences and offer unique insights. The…

  9. Comprehension Research: New Directions and Ideas for LD Teachers.

    ERIC Educational Resources Information Center

    Clary, Linda Mixon; Sheppo, Karen G.

    Research on teaching methods is reviewed for improving the reading comprehension of learning disabled (LD) students. Among the approaches noted are the structured overview, in which the teacher and/or students arrange important concepts and terms in a graphic design for introduction and discussion before reading; use of story grammars to outline…

  10. Comparison of three methods for materials identification and mapping with imaging spectroscopy

    NASA Technical Reports Server (NTRS)

    Clark, Roger N.; Swayze, Gregg; Boardman, Joe; Kruse, Fred

    1993-01-01

    We are comparing three methods of mapping analysis tools for imaging spectroscopy data. The purpose of this comparison is to understand the advantages and disadvantages of each algorithm so others would be better able to choose the best algorithm or combinations of algorithms for a particular problem. The three algorithms are: (1) the spectralfeature modified least squares mapping algorithm of Clark et al (1990, 1991): programs mbandmap and tricorder; (2) the Spectral Angle Mapper Algorithm(Boardman, 1993) found in the CU CSES SIPS package; and (3) the Expert System of Kruse et al. (1993). The comparison uses a ground-calibrated 1990 AVIRIS scene of 400 by 410 pixels over Cuprite, Nevada. Along with the test data set is a spectral library of 38 minerals. Each algorithm is tested with the same AVIRIS data set and spectral library. Field work has confirmed the presence of many of these minerals in the AVIRIS scene (Swayze et al. 1992).

  11. Generative Topographic Mapping (GTM): Universal Tool for Data Visualization, Structure-Activity Modeling and Dataset Comparison.

    PubMed

    Kireeva, N; Baskin, I I; Gaspar, H A; Horvath, D; Marcou, G; Varnek, A

    2012-04-01

    Here, the utility of Generative Topographic Maps (GTM) for data visualization, structure-activity modeling and database comparison is evaluated, on hand of subsets of the Database of Useful Decoys (DUD). Unlike other popular dimensionality reduction approaches like Principal Component Analysis, Sammon Mapping or Self-Organizing Maps, the great advantage of GTMs is providing data probability distribution functions (PDF), both in the high-dimensional space defined by molecular descriptors and in 2D latent space. PDFs for the molecules of different activity classes were successfully used to build classification models in the framework of the Bayesian approach. Because PDFs are represented by a mixture of Gaussian functions, the Bhattacharyya kernel has been proposed as a measure of the overlap of datasets, which leads to an elegant method of global comparison of chemical libraries. Copyright © 2012 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  12. Lymantria dispar iflavirus 1 (LdIV1), a new model to study iflaviral persistence in lepidopterans

    USDA-ARS?s Scientific Manuscript database

    The cell line IPLB-LD-652Y derived from the gypsy moth (Lymantria dispar, Linn.) is routinely used to study insect virus-host interactions. Here we report the full genome sequence and biological characteristics of a small RNA virus, designated Lymantria dispar iflavirus 1 (LdIV1), that was discovere...

  13. Using Prompt Fading to Teach Self-Questioning to Fifth Graders with LD: Effects on Reading Comprehension

    ERIC Educational Resources Information Center

    Rouse, Christina A.; Alber-Morgan, Sheila R.; Cullen, Jennifer M.; Sawyer, Mary

    2014-01-01

    Students with LD who struggle with reading comprehension can benefit from instruction on how to read strategically. One strategy that has been demonstrated to increase reading comprehension is self-questioning. In this study, two fifth graders with LD were taught to self-generate questions using a prompt fading procedure. The participants were…

  14. Crafting an Argument in Steps: A Writing Process Model for Graduate and Professional Students with LD

    ERIC Educational Resources Information Center

    Kallestinova, Elena

    2017-01-01

    The paper discusses argument pedagogy for graduate and professional students with learning disabilities (LD) in the context of academic writing. To understand the nature and types of writing problems that graduate and professional students with LD experience, the author presents results of a university-wide survey with the students who did and did…

  15. AOTV Low L/D Preliminary Aeroheating Design Environment

    NASA Technical Reports Server (NTRS)

    Engel, C. D.

    1983-01-01

    The aerothermal environment to a configuration with a brake face which exhibits a low lift to drag ratio (L/D) of below 0.75 is emphasized. The five times geosynchronous (5 x Geo) orbit entry was selected as the design trajectory. The available data base and math model is discussed. The resulting preliminary design environment is documented. Recommendations as to how the design environment may be improved through technological advances are given.

  16. Quality of Life in Children and Adolescents With Learning Problems: Development and Validation of the LD/QOL15 Scale.

    PubMed

    Waber, Deborah P; Boiselle, Ellen C; Forbes, Peter W; Girard, Jonathan M; Sideridis, Georgios D

    2018-05-01

    Learning problems (LP) can have wider implications than the academic deficits per se. The goal of the present series of studies was to develop a reliable and valid quality-of-life measure targeted to children and adolescents with LP. In Study 1, using a 35-item questionnaire, we surveyed 151 parents/guardians of children referred for assessment of learning disorders. Exploratory factor analysis identified a three-factor model: Academic Performance, School Understanding, and Child/Family Psychological. These factors were validated against standardized measures of academic achievement and psychosocial functioning. The questionnaire was then reduced to 15 items-the LD/QOL15 -and administered to a community sample of 325 parents/guardians of children in Grades 1 to 8 (Study 2). The three-factor model was verified with confirmatory factor analysis. Comparison of general education ( n = 232) and LP ( n = 93) groups within the community sample documented substantial group differences ( p < .0001), with the LP group having higher mean scores. These differences were larger for older students (Grades 5-8) than younger students (Grades 1-4; p < .01). The LD/QOL15 is a brief and reliable measure that is valid to assess quality of life and, potentially, outcomes in children and adolescents with LP.

  17. Simulation of LD Identification Accuracy Using a Pattern of Processing Strengths and Weaknesses Method with Multiple Measures

    ERIC Educational Resources Information Center

    Miciak, Jeremy; Taylor, W. Pat; Stuebing, Karla K.; Fletcher, Jack M.

    2018-01-01

    We investigated the classification accuracy of learning disability (LD) identification methods premised on the identification of an intraindividual pattern of processing strengths and weaknesses (PSW) method using multiple indicators for all latent constructs. Known LD status was derived from latent scores; values at the observed level identified…

  18. A Comprehensive Linkage Map of the Dog Genome

    PubMed Central

    Wong, Aaron K.; Ruhe, Alison L.; Dumont, Beth L.; Robertson, Kathryn R.; Guerrero, Giovanna; Shull, Sheila M.; Ziegle, Janet S.; Millon, Lee V.; Broman, Karl W.; Payseur, Bret A.; Neff, Mark W.

    2010-01-01

    We have leveraged the reference sequence of a boxer to construct the first complete linkage map for the domestic dog. The new map improves access to the dog's unique biology, from human disease counterparts to fascinating evolutionary adaptations. The map was constructed with ∼3000 microsatellite markers developed from the reference sequence. Familial resources afforded 450 mostly phase-known meioses for map assembly. The genotype data supported a framework map with ∼1500 loci. An additional ∼1500 markers served as map validators, contributing modestly to estimates of recombination rate but supporting the framework content. Data from ∼22,000 SNPs informing on a subset of meioses supported map integrity. The sex-averaged map extended 21 M and revealed marked region- and sex-specific differences in recombination rate. The map will enable empiric coverage estimates and multipoint linkage analysis. Knowledge of the variation in recombination rate will also inform on genomewide patterns of linkage disequilibrium (LD), and thus benefit association, selective sweep, and phylogenetic mapping approaches. The computational and wet-bench strategies can be applied to the reference genome of any nonmodel organism to assemble a de novo linkage map. PMID:19966068

  19. Prevalence of LD from Parental and Professional Perspectives: A Comparison of the Data from the National Survey of Children's Health and the Office of Special Education Programs' Reports to Congress

    ERIC Educational Resources Information Center

    Pullen, Paige C.

    2017-01-01

    Since the emergence of the field of learning disabilities (LD) in the late 1960s and early 1970s, controversy has surrounded issues regarding methods used for identification. The prevalence of students identified as LD increased steadily from the 1970s until the beginning of the 21st century, at which time it has decreased until at least 2011 (the…

  20. Leishmania donovani: expression and characterization of Escherichia coli-expressed recombinant chitinase LdCHT1.

    PubMed

    Razek-Desouky, A; Specht, C A; Soong, L; Vinetz, J M

    2001-12-01

    Leishmania parasites produce chitinase activity (EC. 3.2.1.14) thought to be important in parasite-sandfly interactions and transmission of the parasite to the vertebrate host. Previous observations have suggested that parasite chitinases are involved in degradation of the sandfly peritrophic matrix and the chitinous layer of the cardiac valve cuticle. This chitinase activity is thought to produce an incompetent pharyngeal valve sphincter and a route of egress that allow Leishmania promastigotes to be regurgitated into the site of blood feeding. In the studies reported here, enzymatically active L. donovani chitinase LdCHT1 was expressed as a thioredoxin fusion protein in Escherichia coli strain AD494 (DE3). Recombinant LdCHT1 had a predominantly endochitinase activity, in contrast to previous reports of both exo- and endochitinase activities in axenic culture supernatants of diverse Leishmania spp. promastigotes. The predominant endochitinase activity of recombinant LdCHT1 is consistent with the presumed function of the enzyme in disrupting chitinous structures in the sandfly digestive system to allow transmission. Copyright 2001 Elsevier Science (USA).

  1. A DArT marker genetic map of perennial ryegrass (Lolium perenne L.) integrated with detailed comparative mapping information; comparison with existing DArT marker genetic maps of Lolium perenne, L. multiflorum and Festuca pratensis.

    PubMed

    King, Julie; Thomas, Ann; James, Caron; King, Ian; Armstead, Ian

    2013-07-03

    Ryegrasses and fescues (genera, Lolium and Festuca) are species of forage and turf grasses which are used widely in agricultural and amenity situations. They are classified within the sub-family Pooideae and so are closely related to Brachypodium distachyon, wheat, barley, rye and oats. Recently, a DArT array has been developed which can be used in generating marker and mapping information for ryegrasses and fescues. This represents a potential common marker set for ryegrass and fescue researchers which can be linked through to comparative genomic information for the grasses. A F2 perennial ryegrass genetic map was developed consisting of 7 linkage groups defined by 1316 markers and deriving a total map length of 683 cM. The marker set included 866 DArT and 315 gene sequence-based markers. Comparison with previous DArT mapping studies in perennial and Italian ryegrass (L. multiflorum) identified 87 and 105 DArT markers in common, respectively, of which 94% and 87% mapped to homoeologous linkage groups. A similar comparison with meadow fescue (F. pratensis) identified only 28 DArT markers in common, of which c. 50% mapped to non-homoelogous linkage groups. In L. perenne, the genetic distance spanned by the DArT markers encompassed the majority of the regions that could be described in terms of comparative genomic relationships with rice, Brachypodium distachyon, and Sorghum bicolor. DArT markers are likely to be a useful common marker resource for ryegrasses and fescues, though the success in aligning different populations through the mapping of common markers will be influenced by degrees of population interrelatedness. The detailed mapping of DArT and gene-based markers in this study potentially allows comparative relationships to be derived in future mapping populations characterised using solely DArT markers.

  2. Bit-rate transparent DPSK demodulation scheme based on injection locking FP-LD

    NASA Astrophysics Data System (ADS)

    Feng, Hanlin; Xiao, Shilin; Yi, Lilin; Zhou, Zhao; Yang, Pei; Shi, Jie

    2013-05-01

    We propose and demonstrate a bit-rate transparent differential phase shift-keying (DPSK) demodulation scheme based on injection locking multiple-quantum-well (MQW) strained InGaAsP FP-LD. By utilizing frequency deviation generated by phase modulation and unstable injection locking state with Fabry-Perot laser diode (FP-LD), DPSK to polarization shift-keying (PolSK) and PolSK to intensity modulation (IM) format conversions are realized. We analyze bit error rate (BER) performance of this demodulation scheme. Experimental results show that different longitude modes, bit rates and seeding power have influences on demodulation performance. We achieve error free DPSK signal demodulation under various bit rates of 10 Gbit/s, 5 Gbit/s, 2.5 Gbit/s and 1.25 Gbit/s with the same demodulation setting.

  3. Impact of the Personal Strengths Program on Self-Determination Levels of College Students with LD and/or ADHD

    ERIC Educational Resources Information Center

    Farmer, Jennie L.; Allsopp, David H.; Ferron, John M.

    2015-01-01

    This study investigates the impact of The Personal Strengths Program (PSP) on seven college students with learning disabilities and/or attention deficit hyperactivity disorder (LD/ADHD) using a multiple baseline design. Students with LD/ADHD experience increased challenges in school settings and decreased post-secondary outcomes when compared with…

  4. Students classified as LD and the college foreign language requirement: a quantitative analysis.

    PubMed

    Sparks, R L; Philips, L; Ganschow, L; Javorsky, J

    1999-01-01

    This study was conducted to determine whether students classified as learning disabled (LD) who were permitted to substitute courses for the college foreign language (FL) requirement at one university would display significant cognitive and academic achievement differences when grouped by level of discrepancy between IQ and achievement, by discrepancy between achievement according to different measures, and by level of performance on phonological-orthographic processing measures, on the Modern Language Aptitude Test (MLAT), and in FL courses. Results showed that there were no differences among students with different levels of discrepancy (i.e., < 1.0 SD, 1.0-1.49 SD, and > 1.50 SD) on MLAT and American College Testing (ACT) scores, graduating grade point average (GPA) or college FL GPA. Results also showed that among students who scored below versus at or above the 25th percentile on phonological-orthographic processing measures, there were no differences on measures of IQ, ACT, MLAT, and GPA, as well as most measures of academic achievement. Implications for the use of the LD label to grant FL course substitutions or waivers, use of the MLAT in the diagnostic and course substitution/waiver process, and the validity and reliability of traditional criteria for the classification as LD are discussed.

  5. Helping Students with LD to Succeed: The Role of Teachers' Hope, Sense of Coherence and Specific Self-Efficacy

    ERIC Educational Resources Information Center

    Levi, Uzi; Einav, Michal; Raskind, Ilana; Ziv, Orit; Margalit, Malka

    2013-01-01

    Teachers play a critical role in facilitating the academic achievements of students with learning disabilities (LD). The personal resources of teachers, such as sense of coherence (SOC) and hopeful thinking, may predict self-perception of the competency and efficacy they possess to help students with LD acquire needed learning skills. Several…

  6. Structural basis for the interaction between Pyk2-FAT domain and leupaxin LD repeats

    DOE PAGES

    Vanarotti, Murugendra S.; Finkelstein, David B.; Guibao, Cristina D.; ...

    2016-02-11

    Proline-rich tyrosine kinase 2 (Pyk2) is a nonreceptor tyrosine kinase and belongs to the focal adhesion kinase (FAK) family. Like FAK, the C-terminal focal adhesion-targeting (FAT) domain of Pyk2 binds to paxillin, a scaffold protein in focal adhesions; however, the interaction between the FAT domain of Pyk2 and paxillin is dynamic and unstable. Leupaxin is another member in the paxillin family and was suggested to be the native binding partner of Pyk2; Pyk2 gene expression is strongly correlated with that of leupaxin in many tissues including primary breast cancer. Here, we report that leupaxin interacts with Pyk2-FAT. Leupaxin has fourmore » leucine–aspartate (LD) motifs. The first and third LD motifs of leupaxin preferably target the two LD-binding sites on the Pyk2-FAT domain, respectively. Moreover, the full-length leupaxin binds to Pyk2-FAT as a stable one-to-one complex. Together, we propose that there is an underlying selectivity between leupaxin and paxillin for Pyk2, which may influence the differing behavior of the two proteins at focal adhesion sites.« less

  7. Structural basis for the interaction between Pyk2-FAT domain and leupaxin LD repeats

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

    Vanarotti, Murugendra S.; Finkelstein, David B.; Guibao, Cristina D.

    Proline-rich tyrosine kinase 2 (Pyk2) is a nonreceptor tyrosine kinase and belongs to the focal adhesion kinase (FAK) family. Like FAK, the C-terminal focal adhesion-targeting (FAT) domain of Pyk2 binds to paxillin, a scaffold protein in focal adhesions; however, the interaction between the FAT domain of Pyk2 and paxillin is dynamic and unstable. Leupaxin is another member in the paxillin family and was suggested to be the native binding partner of Pyk2; Pyk2 gene expression is strongly correlated with that of leupaxin in many tissues including primary breast cancer. Here, we report that leupaxin interacts with Pyk2-FAT. Leupaxin has fourmore » leucine–aspartate (LD) motifs. The first and third LD motifs of leupaxin preferably target the two LD-binding sites on the Pyk2-FAT domain, respectively. Moreover, the full-length leupaxin binds to Pyk2-FAT as a stable one-to-one complex. Together, we propose that there is an underlying selectivity between leupaxin and paxillin for Pyk2, which may influence the differing behavior of the two proteins at focal adhesion sites.« less

  8. Comparing physiographic maps with different categorisations

    NASA Astrophysics Data System (ADS)

    Zawadzka, J.; Mayr, T.; Bellamy, P.; Corstanje, R.

    2015-02-01

    This paper addresses the need for a robust map comparison method suitable for finding similarities between thematic maps with different forms of categorisations. In our case, the requirement was to establish the information content of newly derived physiographic maps with regards to set of reference maps for a study area in England and Wales. Physiographic maps were derived from the 90 m resolution SRTM DEM, using a suite of existing and new digital landform mapping methods with the overarching purpose of enhancing the physiographic unit component of the Soil and Terrain database (SOTER). Reference maps were seven soil and landscape datasets mapped at scales ranging from 1:200,000 to 1:5,000,000. A review of commonly used statistical methods for categorical comparisons was performed and of these, the Cramer's V statistic was identified as the most appropriate for comparison of maps with different legends. Interpretation of multiple Cramer's V values resulting from one-by-one comparisons of the physiographic and baseline maps was facilitated by multi-dimensional scaling and calculation of average distances between the maps. The method allowed for finding similarities and dissimilarities amongst physiographic maps and baseline maps and informed the recommendation of the most suitable methodology for terrain analysis in the context of soil mapping.

  9. Mothers of Children with LD and ADHD: Empowerment through Online Communication

    ERIC Educational Resources Information Center

    Margalit, Malka; Raskind, Marshall H.

    2009-01-01

    Mothers of children with learning disabilities (LD) and Attention Deficit Hyperactivity Disorder (ADHD) were notified of the possibility that their online community was going to be closed. They immediately responded with messages about the significance of the community to their lives and distress that the site would not continue to be available.…

  10. Teaching the Presidential Elections Using Media Literacy in the LD Classroom

    ERIC Educational Resources Information Center

    Siegel, Jaclyn Kahn

    2017-01-01

    This paper examines how an educator at a school for students with learning disabilities (LD) used various types of media to engage her students, to develop their academic and executive functioning skills, and to heighten their awareness of media literacy and the 2012 and 2106 Presidential elections. Teacher-created curriculum materials and…

  11. LD-PACE II: a new cardiomyostimulator for cardiac bioassist.

    PubMed

    Chekanov, V S; Chachques, J C; Brum, F; Arzuaga, J; Arzuaga, P; Krum, D P; Hare, J W; Maternowski, M A; Tchekanov, G V; Fiandra, O; Hammond, R; Melamed, V; Chiu, R C; Stephenson, L W

    2001-01-01

    The LD-PACE II was designed for use in cardiomyoplasty, aortomyoplasty, and skeletal muscle ventricles. All parameters specified as programmable can be changed in a noninvasive manner (using a programming interface wand connected to a computer using the Windows 95/98 environment). Two new functions may be very useful clinically, based on experimental research. 1. Work-rest regimen. The LD-PACE II is able to deliver alternating periods of muscle contractions and rest. Work and rest periods may be programmed independently between 1 and 120 minutes in increments of 1 minute. The work-rest regimen may be useful clinically if muscle contractions are needed for cardiac assist postoperatively. 2. Night/day regimen. This feature allows for a change in the ratio of muscle contractions according to a patient's activity level. During the day the cardiosynchronization ratio may be set from 1:1 to 1:4, and during the night it may be set for 1:8 to 1:16. This allows the muscle to have a long rest period, prevents overuse, and prolongs battery life. These two new features make this cardiomyostimulator very attractive for cardiomyoplasty in particular. The addition of the work-rest and night-day regimens allow the muscle to rest for periods during the day to prevent overuse, subsequent damage, and potential atrophy.

  12. A third-generation microsatellite-based linkage map of the honey bee, Apis mellifera, and its comparison with the sequence-based physical map.

    PubMed

    Solignac, Michel; Mougel, Florence; Vautrin, Dominique; Monnerot, Monique; Cornuet, Jean-Marie

    2007-01-01

    The honey bee is a key model for social behavior and this feature led to the selection of the species for genome sequencing. A genetic map is a necessary companion to the sequence. In addition, because there was originally no physical map for the honey bee genome project, a meiotic map was the only resource for organizing the sequence assembly on the chromosomes. We present the genetic (meiotic) map here and describe the main features that emerged from comparison with the sequence-based physical map. The genetic map of the honey bee is saturated and the chromosomes are oriented from the centromeric to the telomeric regions. The map is based on 2,008 markers and is about 40 Morgans (M) long, resulting in a marker density of one every 2.05 centiMorgans (cM). For the 186 megabases (Mb) of the genome mapped and assembled, this corresponds to a very high average recombination rate of 22.04 cM/Mb. Honey bee meiosis shows a relatively homogeneous recombination rate along and across chromosomes, as well as within and between individuals. Interference is higher than inferred from the Kosambi function of distance. In addition, numerous recombination hotspots are dispersed over the genome. The very large genetic length of the honey bee genome, its small physical size and an almost complete genome sequence with a relatively low number of genes suggest a very promising future for association mapping in the honey bee, particularly as the existence of haploid males allows easy bulk segregant analysis.

  13. Epoxy matrix composites filled with micro-sized LD sludge: wear characterization and analysis

    NASA Astrophysics Data System (ADS)

    Purohit, Abhilash; Satapathy, Alok

    2016-02-01

    Owing to the very high cost of conventional filler materials in polymer composites, exploring the possibility of using low cost minerals and industrial wastes for this purpose has become the need of the hour. In view of this, the present work includes the development and the wear performance evaluation of a new class of composites consisting of epoxy and microsized LD sludge. LD sludge or the Linz-Donawitz Sludge (LDS) are the fine solid particles recovered after wet cleaning of the gas emerging from LD convertors during steel making. Epoxy composites filled with different proportions (0, 5, 10, 15 and 20 wt %) of LDS are fabricated by conventional hand lay-up technique. Dry sliding wear trials are performed on the composite specimens under different test conditions as per ASTM G 99 following a design of experiment approach based on Taguchi's orthogonal arrays. The Taguchi approach leads to the recognition of most powerful variables that predominantly control the wear rate. This parametric analysis reveals that LDS content and sliding velocity affects the specific wear rate more significantly than normal load and sliding distance. Furthermore with increase in LDS content specific wear rate of the composite decreases for a constant sliding velocity. The sliding wear behavior of these composites under an extended range of test conditions is predicted by a model based on the artificial neural network (ANN).

  14. Gden: An indicator for European noise maps comparison and to support action plans.

    PubMed

    Licitra, Gaetano; Ascari, Elena

    2014-06-01

    Ten years after the approval of the Environmental Noise Directive 2002/49/EC (END) a large experience have been acquired to develop noise maps and action plans: the Noise Observation and Information Service for Europe maintained by the European Environment Agency (EEA) on behalf of the European Commission contains all data delivered in accordance with the END by Members States within the first round of implementation of the END. This large database should be useful to evaluate the pollution of Europe and to guide policy makers to establish best practices. However, local procedures and national methods do not permit a direct comparison of data reported. A comparison within agglomerations in EU is here carried out in order to find suitable indicators to identify most polluted cities despite different methods used. Critical and quiet areas have been assessed in action plans, but national laws and requirements are various, as different indicators used for their identification. The analysis was performed on noise exposure classes distribution, grouping them together using Gden and Gnight indicators to offer a new tool for presenting noise maps of the cities to the public permitting their comparison and for drawing detailed action plans. Strong relationship between these indicators and highly annoyed and highly sleep-disturbed people percentages are obtained. Furthermore, a comparison between Gden and Qcity Noise Scoring for local hot spot identification is carried out for the agglomeration of Pisa, where different transportation noise sources are present. The final goal is to define faster methods for suitable indicators calculation in hot spot identifications. © 2013 Elsevier B.V. All rights reserved.

  15. Analysis of Genomic Admixture in Uyghur and Its Implication in Mapping Strategy

    PubMed Central

    Xu, Shuhua; Huang, Wei; Qian, Ji; Jin, Li

    2008-01-01

    The Uyghur (UIG) population, settled in Xinjiang, China, is a population presenting a typical admixture of Eastern and Western anthropometric traits. We dissected its genomic structure at population level, individual level, and chromosome level by using 20,177 SNPs spanning nearly the entire chromosome 21. Our results showed that UIG was formed by two-way admixture, with 60% European ancestry and 40% East Asian ancestry. Overall linkage disequilibrium (LD) in UIG was similar to that in its parental populations represented in East Asia and Europe with regard to common alleles, and UIG manifested elevation of LD only within 500 kb and at a level of 0.1 < r2 < 0.8 when ancestry-informative markers (AIMs) were used. The size of chromosomal segments that were derived from East Asian and European ancestries averaged 2.4 cM and 4.1 cM, respectively. Both the magnitude of LD and fragmentary ancestral chromosome segments indicated a long history of Uyghur. Under the assumption of a hybrid isolation (HI) model, we estimated that the admixture event of UIG occurred about 126 [107∼146] generations ago, or 2520 [2140∼2920] years ago assuming 20 years per generation. In spite of the long history and short LD of Uyghur compared with recent admixture populations such as the African-American population, we suggest that mapping by admixture LD (MALD) is still applicable in the Uyghur population but ∼10-fold AIMs are necessary for a whole-genome scan. PMID:18355773

  16. Comparison of synchronization of primate circadian rhythms by light and food

    NASA Technical Reports Server (NTRS)

    Sulzman, F. M.; Fuller, C. A.; Moore-Ede, M. C.

    1978-01-01

    It is a well-documented fact that cycles of light and dark (LD) are the major entraining agent or 'zeitgeber' for circadian rhythms and that cycles of eating and fasting (EF) are capable of synchronizing a few circadian rhythms in the squirrel monkey. In this paper, by contrasting how these rhythms are timed by LD and EF cycles, the differential coupling to the oscillating system within adult male squirrel monkeys is examined. The variables measured are the rhythms of drinking, colonic temperature, and urinary potassium and water excretion. Attention is given to a comparison of the reproducibility of the averaged waveforms of the rhythms, the stability of the timing of a phase reference point, and the rate of resynchronization of these rhythms following an abrupt 8-hr phase delay in the zeitgeber. It is shown that the colonic temperature rhythm is more tightly controlled by LD than EF cycles, and that the drinking and urinary rhythms are more tightly coupled to EF than LD cycles.

  17. A study of an orbital radar mapping mission to Venus. Volume 3: Parametric studies and subsystem comparisons

    NASA Technical Reports Server (NTRS)

    1973-01-01

    Parametric studies and subsystem comparisons for the orbital radar mapping mission to planet Venus are presented. Launch vehicle requirements and primary orbiter propulsion system requirements are evaluated. The systems parametric analysis indicated that orbit size and orientation interrelated with almost all of the principal spacecraft systems and influenced significantly the definition of orbit insertion propulsion requirements, weight in orbit capability, radar system design, and mapping strategy.

  18. Marine habitat mapping of the Milford Haven Waterway, Wales, UK: Comparison of facies mapping and EUNIS classification for monitoring sediment habitats in an industrialized estuary

    NASA Astrophysics Data System (ADS)

    Carey, Drew A.; Hayn, Melanie; Germano, Joseph D.; Little, David I.; Bullimore, Blaise

    2015-06-01

    A detailed map and dataset of sedimentary habitats of the Milford Haven Waterway (MHW) was compiled for the Milford Haven Waterway Environmental Surveillance Group (MHWESG) from seafloor images collected in May, 2012 using sediment-profile and plan-view imaging (SPI/PV) survey techniques. This is the most comprehensive synoptic assessment of sediment distribution and benthic habitat composition available for the MHW, with 559 stations covering over 40 km2 of subtidal habitats. In the context of the MHW, an interpretative framework was developed that classified each station within a 'facies' that included information on the location within the waterway and inferred sedimentary and biological processes. The facies approach provides critical information on landscape-scale habitats including relative location and inferred sediment transport processes and can be used to direct future monitoring activities within the MHW and to predict areas of greatest potential risk from contaminant transport. Intertidal sediment 'facies' maps have been compiled in the past for MHW; this approach was expanded to map the subtidal portions of the waterway. Because sediment facies can be projected over larger areas than individual samples (due to assumptions based on physiography, or landforms) they represent an observational model of the distribution of sediments in an estuary. This model can be tested over time and space through comparison with additional past or future sample results. This approach provides a means to evaluate stability or change in the physical and biological conditions of the estuarine system. Initial comparison with past results for intertidal facies mapping and grain size analysis from grab samples showed remarkable stability over time for the MHW. The results of the SPI/PV mapping effort were cross-walked to the European Nature Information System (EUNIS) classification to provide a comparison of locally derived habitat mapping with European-standard habitat

  19. a Performance Comparison of Feature Detectors for Planetary Rover Mapping and Localization

    NASA Astrophysics Data System (ADS)

    Wan, W.; Peng, M.; Xing, Y.; Wang, Y.; Liu, Z.; Di, K.; Teng, B.; Mao, X.; Zhao, Q.; Xin, X.; Jia, M.

    2017-07-01

    Feature detection and matching are key techniques in computer vision and robotics, and have been successfully implemented in many fields. So far there is no performance comparison of feature detectors and matching methods for planetary mapping and rover localization using rover stereo images. In this research, we present a comprehensive evaluation and comparison of six feature detectors, including Moravec, Förstner, Harris, FAST, SIFT and SURF, aiming for optimal implementation of feature-based matching in planetary surface environment. To facilitate quantitative analysis, a series of evaluation criteria, including distribution evenness of matched points, coverage of detected points, and feature matching accuracy, are developed in the research. In order to perform exhaustive evaluation, stereo images, simulated under different baseline, pitch angle, and interval of adjacent rover locations, are taken as experimental data source. The comparison results show that SIFT offers the best overall performance, especially it is less sensitive to changes of image taken at adjacent locations.

  20. High resolution sub-millimetre mapping of starburst galaxies: Comparison with CO emission

    NASA Technical Reports Server (NTRS)

    Smith, P. A.; Brand, P. W. J. L.; Puxley, Phil J.; Mountain, C. M.; Nakai, Naomasa

    1990-01-01

    Researchers present first results from a program of submillimeter continuum mapping of starburst galaxies, and comparison of their dust and CO emission. This project was prompted by surprising results from the first target, the nearby starburst M82, which shows in the dust continuum a morphology quite unlike that of its CO emission, in contrast to what might be expected if both CO and dust are accurately tracing the molecular hydrogen. Possible explanations for this striking difference are discussed. In the light of these results, the program has been extended to include sub-mm mapping of the nearby, vigorously star forming spirals, M83 and Maffei 2. The latter were also observed extensively in CO, in order to study excitation conditions in its central regions. The James Clerk Maxwell Telescope was used in these studies.

  1. Academic procrastination, emotional intelligence, academic self-efficacy, and GPA: a comparison between students with and without learning disabilities.

    PubMed

    Hen, Meirav; Goroshit, Marina

    2014-01-01

    Academic procrastination has been seen as an impediment to students' academic success. Research findings suggest that it is related to lower levels of self-regulated learning and academic self-efficacy and associated with higher levels of anxiety, stress, and illness. Emotional intelligence (EI) is the ability to assess, regulate, and utilize emotions and has been found to be associated with academic self-efficacy and a variety of better outcomes, including academic performance. Students with learning disabilities (LD) are well acquainted with academic difficulty and maladaptive academic behavior. In comparison to students without LD, they exhibit high levels of learned helplessness, including diminished persistence, lower academic expectations, and negative affect. This study examined the relationships among academic procrastination, EI, and academic performance as mediated by academic self-efficacy in 287 LD and non-LD students. Results indicated that the indirect effect of EI on academic procrastination and GPA was stronger in LD students than in non-LD students. In addition, results indicated that LD students scored lower than non-LD students on both EI and academic self-efficacy and higher on academic procrastination. No difference was found in GPA.

  2. Dependence between LD50 for Rodents and LC50 for Adult Fish and Fish Embryos.

    PubMed

    Zolotarev, K V; Belyaeva, N F; Mikhailov, A N; Mikhailova, M V

    2017-02-01

    We revealed empirical dependences between common logarithm of a ratio of rat oral LD 50 to LC a 50 for adult fish and lgP for 50 different chemicals; and common logarithm of a ratio of the oral LD 50 in rodents to LC e 50 for fish embryos and lgP for 30 different chemicals. The dependences were obtained by constructing a trend line between experimental points and calculation of Pearson's R correlation coefficient as a measure of regression significance. These dependences can show the influence of substance lipophilicity on its toxicity for aquatic organisms comparing to mammals.

  3. Ultra-high density intra-specific genetic linkage maps accelerate identification of functionally relevant molecular tags governing important agronomic traits in chickpea

    PubMed Central

    Kujur, Alice; Upadhyaya, Hari D.; Shree, Tanima; Bajaj, Deepak; Das, Shouvik; Saxena, Maneesha S.; Badoni, Saurabh; Kumar, Vinod; Tripathi, Shailesh; Gowda, C. L. L.; Sharma, Shivali; Singh, Sube; Tyagi, Akhilesh K.; Parida, Swarup K.

    2015-01-01

    We discovered 26785 and 16573 high-quality SNPs differentiating two parental genotypes of a RIL mapping population using reference desi and kabuli genome-based GBS assay. Of these, 3625 and 2177 SNPs have been integrated into eight desi and kabuli chromosomes, respectively in order to construct ultra-high density (0.20–0.37 cM) intra-specific chickpea genetic linkage maps. One of these constructed high-resolution genetic map has potential to identify 33 major genomic regions harbouring 35 robust QTLs (PVE: 17.9–39.7%) associated with three agronomic traits, which were mapped within <1 cM mean marker intervals on desi chromosomes. The extended LD (linkage disequilibrium) decay (~15 cM) in chromosomes of genetic maps have encouraged us to use a rapid integrated approach (comparative QTL mapping, QTL-region specific haplotype/LD-based trait association analysis, expression profiling and gene haplotype-based association mapping) rather than a traditional QTL map-based cloning method to narrow-down one major seed weight (SW) robust QTL region. It delineated favourable natural allelic variants and superior haplotype-containing one seed-specific candidate embryo defective gene regulating SW in chickpea. The ultra-high-resolution genetic maps, QTLs/genes and alleles/haplotypes-related genomic information generated and integrated strategy for rapid QTL/gene identification developed have potential to expedite genomics-assisted breeding applications in crop plants, including chickpea for their genetic enhancement. PMID:25942004

  4. Comparison of CT-derived Ventilation Maps with Deposition Patterns of Inhaled Microspheres in Rats

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

    Jacob, Rick E.; Lamm, W. J.; Einstein, Daniel R.

    2015-04-01

    Purpose: Computer models for inhalation toxicology and drug-aerosol delivery studies rely on ventilation pattern inputs for predictions of particle deposition and vapor uptake. However, changes in lung mechanics due to disease can impact airflow dynamics and model results. It has been demonstrated that non-invasive, in vivo, 4DCT imaging (3D imaging at multiple time points in the breathing cycle) can be used to map heterogeneities in ventilation patterns under healthy and disease conditions. The purpose of this study was to validate ventilation patterns measured from CT imaging by exposing the same rats to an aerosol of fluorescent microspheres (FMS) and examiningmore » particle deposition patterns using cryomicrotome imaging. Materials and Methods: Six male Sprague-Dawley rats were intratracheally instilled with elastase to a single lobe to induce a heterogeneous disease. After four weeks, rats were imaged over the breathing cycle by CT then immediately exposed to an aerosol of ~1µm FMS for ~5 minutes. After the exposure, the lungs were excised and prepared for cryomicrotome imaging, where a 3D image of FMS deposition was acquired using serial sectioning. Cryomicrotome images were spatially registered to match the live CT images to facilitate direct quantitative comparisons of FMS signal intensity with the CT-based ventilation maps. Results: Comparisons of fractional ventilation in contiguous, non-overlapping, 3D regions between CT-based ventilation maps and FMS images showed strong correlations in fractional ventilation (r=0.888, p<0.0001). Conclusion: We conclude that ventilation maps derived from CT imaging are predictive of the 1µm aerosol deposition used in ventilation-perfusion heterogeneity inhalation studies.« less

  5. LD end pumped mode locked and cavity dumped Nd:YAP laser at 1.34 μm

    NASA Astrophysics Data System (ADS)

    Wang, X.; Wang, S.; Rhee, H.; Eichler, H. J.; Meister, S.

    2011-06-01

    We report a LD end pumped actively mode locked, passively Q switched and cavity dumped Nd:YAP laser at 1.34 μm. The dumped output pulse energy of 160 μJ is obtained at a repetition rate of 10 Hz. Passing through a LD end pumped, double-passed Nd:YAP amplifier the pulse energy is amplified to 1.44 mJ. The corresponding amplification factor is 9. Stimulated Raman scattering experiment is taken with a 9 mm long PbWO4 Raman crystal. Maximum of 20% Raman conversion is reached.

  6. A Consensus Genetic Map for Pinus taeda and Pinus elliottii and Extent of Linkage Disequilibrium in Two Genotype-Phenotype Discovery Populations of Pinus taeda

    PubMed Central

    Westbrook, Jared W.; Chhatre, Vikram E.; Wu, Le-Shin; Chamala, Srikar; Neves, Leandro Gomide; Muñoz, Patricio; Martínez-García, Pedro J.; Neale, David B.; Kirst, Matias; Mockaitis, Keithanne; Nelson, C. Dana; Peter, Gary F.; Echt, Craig S.

    2015-01-01

    A consensus genetic map for Pinus taeda (loblolly pine) and Pinus elliottii (slash pine) was constructed by merging three previously published P. taeda maps with a map from a pseudo-backcross between P. elliottii and P. taeda. The consensus map positioned 3856 markers via genotyping of 1251 individuals from four pedigrees. It is the densest linkage map for a conifer to date. Average marker spacing was 0.6 cM and total map length was 2305 cM. Functional predictions of mapped genes were improved by aligning expressed sequence tags used for marker discovery to full-length P. taeda transcripts. Alignments to the P. taeda genome mapped 3305 scaffold sequences onto 12 linkage groups. The consensus genetic map was used to compare the genome-wide linkage disequilibrium in a population of distantly related P. taeda individuals (ADEPT2) used for association genetic studies and a multiple-family pedigree used for genomic selection (CCLONES). The prevalence and extent of LD was greater in CCLONES as compared to ADEPT2; however, extended LD with LGs or between LGs was rare in both populations. The average squared correlations, r2, between SNP alleles less than 1 cM apart were less than 0.05 in both populations and r2 did not decay substantially with genetic distance. The consensus map and analysis of linkage disequilibrium establish a foundation for comparative association mapping and genomic selection in P. taeda and P. elliottii. PMID:26068575

  7. The Emotional Exhaustion Aspect of Burnout and Stressors in Resource LD Teachers.

    ERIC Educational Resources Information Center

    Shea, Catherine A.

    This study sought to develop a clearer understanding of the correlates of the emotional exhaustion aspect of burnout among learning disabilities (LD) teachers in resource programs. Specifically, the study examined the relationship between the emotional aspect of burnout as measured by the Maslach Burnout Inventory (MBI) and: (1) background…

  8. Mapping accuracy via spectrally and structurally based filtering techniques: comparisons through visual observations

    NASA Astrophysics Data System (ADS)

    Chockalingam, Letchumanan

    2005-01-01

    The data of Gunung Ledang region of Malaysia acquired through LANDSAT are considered to map certain hydrogeolocial features. To map these significant features, image-processing tools such as contrast enhancement, edge detection techniques are employed. The advantages of these techniques over the other methods are evaluated from the point of their validity in properly isolating features of hydrogeolocial interest are discussed. As these techniques take the advantage of spectral aspects of the images, these techniques have several limitations to meet the objectives. To discuss these limitations, a morphological transformation, which generally considers the structural aspects rather than spectral aspects from the image, are applied to provide comparisons between the results derived from spectral based and the structural based filtering techniques.

  9. Genomewide Linkage Disequilibrium Mapping of Severe Bipolar Disorder in a Population Isolate

    PubMed Central

    Ophoff, Roel A.; Escamilla, Michael A.; Service, Susan K.; Spesny, Mitzi; Meshi, Dar B.; Poon, Wingman; Molina, Julio; Fournier, Eduardo; Gallegos, Alvaro; Mathews, Carol; Neylan, Thomas; Batki, Steven L.; Roche, Erin; Ramirez, Margarita; Silva, Sandra; De Mille, Melissa C.; Dong, Penny; Leon, Pedro E.; Reus, Victor I.; Sandkuijl, Lodewijk A.; Freimer, Nelson B.

    2002-01-01

    Genomewide association studies may offer the best promise for genetic mapping of complex traits. Such studies in outbred populations require very densely spaced single-nucleotide polymorphisms. In recently founded population isolates, however, extensive linkage disequilibrium (LD) may make these studies feasible with currently available sets of short tandem repeat markers, spaced at intervals as large as a few centimorgans. We report the results of a genomewide association study of severe bipolar disorder (BP-I), using patients from the isolated population of the central valley of Costa Rica. We observed LD with BP-I on several chromosomes; the most striking results were in proximal 8p, a region that has previously shown linkage to schizophrenia. This region could be important for severe psychiatric disorders, rather than for a specific phenotype. PMID:12119601

  10. The evolution of mapping habitat for northern spotted owls (Strix occidentalis caurina): A comparison of photo-interpreted, Landsat-based, and lidar-based habitat maps

    USGS Publications Warehouse

    Ackers, Steven H.; Davis, Raymond J.; Olsen, K.; Dugger, Catherine

    2015-01-01

    performance of the Landsat-based map was within acceptable limits (AUC = 0.717 ± 0.021). As is common with photo-interpreted maps, there was no accuracy assessment available for comparison. The photo-interpreted map produced the highest and lowest estimates of habitat area, depending on which habitat classes were included (nesting, roosting, and foraging habitat = 9962 ha, nesting habitat only = 6036 ha). The Landsat-based map produced an estimate of habitat area that was within this range (95% CI: 6679–9592 ha), while the lidar-based map produced an area estimate similar to what was interpreted by local wildlife biologists as nesting (i.e., high quality) habitat using aerial imagery (95% CI: 5453–7216). Confidence intervals of habitat area estimates from the SDMs based on Landsat and lidar overlapped.We concluded that both Landsat- and lidar-based SDMs produced reasonable maps and area estimates for northern spotted owl habitat within the study area. The lidar-based map was more precise and spatially similar to what local wildlife biologists considered spotted owl nesting habitat. The Landsat-based map provided a less precise spatial representation of habitat within the relatively small geographic confines of the study area, but habitat area estimates were similar to both the photo-interpreted and lidar-based maps.Photo-interpreted maps are time consuming to produce, subjective in nature, and difficult to replicate. SDMs provide a framework for efficiently producing habitat maps that can be replicated as habitat conditions change over time, provided that comparable remotely sensed data are available. When the SDM uses predictor variables extracted from lidar data, it can produce a habitat map that is both accurate and useful at large and small spatial scales. In comparison, SDMs using Landsat-based data are more appropriate for large scale analyses of amounts and general spatial patterns of habitat at regional scales.

  11. Functionally Relevant Microsatellite Markers From Chickpea Transcription Factor Genes for Efficient Genotyping Applications and Trait Association Mapping

    PubMed Central

    Kujur, Alice; Bajaj, Deepak; Saxena, Maneesha S.; Tripathi, Shailesh; Upadhyaya, Hari D.; Gowda, C.L.L.; Singh, Sube; Jain, Mukesh; Tyagi, Akhilesh K.; Parida, Swarup K.

    2013-01-01

    We developed 1108 transcription factor gene-derived microsatellite (TFGMS) and 161 transcription factor functional domain-associated microsatellite (TFFDMS) markers from 707 TFs of chickpea. The robust amplification efficiency (96.5%) and high intra-specific polymorphic potential (34%) detected by markers suggest their immense utilities in efficient large-scale genotyping applications, including construction of both physical and functional transcript maps and understanding population structure. Candidate gene-based association analysis revealed strong genetic association of TFFDMS markers with three major seed and pod traits. Further, TFGMS markers in the 5′ untranslated regions of TF genes showing differential expression during seed development had higher trait association potential. The significance of TFFDMS markers was demonstrated by correlating their allelic variation with amino acid sequence expansion/contraction in the functional domain and alteration of secondary protein structure encoded by genes. The seed weight-associated markers were validated through traditional bi-parental genetic mapping. The determination of gene-specific linkage disequilibrium (LD) patterns in desi and kabuli based on single nucleotide polymorphism-microsatellite marker haplotypes revealed extended LD decay, enhanced LD resolution and trait association potential of genes. The evolutionary history of a strong seed-size/weight-associated TF based on natural variation and haplotype sharing among desi, kabuli and wild unravelled useful information having implication for seed-size trait evolution during chickpea domestication. PMID:23633531

  12. Substance use, substance abuse, and LD among adolescents with a childhood history of ADHD.

    PubMed

    Molina, B S; Pelham, W E

    2001-01-01

    A clinic-referred sample of 109 children with attention-deficit/hyperactivity disorder (ADHD) was followed into adolescence for the ascertainment of alcohol and other drug use and abuse. Learning disability (reading or math) in childhood was examined as a predictor of adolescent substance use and substance use disorder for alcohol and marijuana. No statistically significant group differences for children with LD versus those without LD emerged even after using different methods to compute LD. IQ/achievement discrepancy scores were similarly not predictive of later use or abuse. However, children with ADHD who had higher IQs and higher levels of academic achievement in childhood were more likely to try cigarettes, to smoke daily, and to have their first drink of alcohol or first cigarette at an early age. Children with ADHD who had higher reading achievement scores were less likely to have later alcohol use disorder. Although these findings are necessarily preliminary, due to the small number of children interviewed, the pattern of results suggests that level of cognitive functioning--rather than discrepancy between IQ and achievement--is important for the prediction of later substance use and abuse, at least in this clinic-referred sample of children with ADHD. Further, different mechanisms of risk related to cognitive functioning may be operating for experimentation with legal drugs such as alcohol and tobacco, regular cigarette smoking, and problematic alcohol use.

  13. Temporal analysis and spatial mapping of Lymantria dispar nuclear polyhedrosis virus transcripts and in vitro translation polypeptides

    Treesearch

    James M. Slavicek

    1991-01-01

    Genomic expression of the Lymantriu dispar multinucleocapsid nuclear polyhedrosis virus (LdMNPV) was studied. Viral specific transcripts expressed in cell culture at various times from 2 through 72 h postinfection were identified and their genomic origins mapped through Northern analysis. Sixty-five distinct transcripts were identified in this...

  14. Evaluation of the User Strategy on 2d and 3d City Maps Based on Novel Scanpath Comparison Method and Graph Visualization

    NASA Astrophysics Data System (ADS)

    Dolezalova, J.; Popelka, S.

    2016-06-01

    The paper is dealing with scanpath comparison of eye-tracking data recorded during case study focused on the evaluation of 2D and 3D city maps. The experiment contained screenshots from three map portals. Two types of maps were used - standard map and 3D visualization. Respondents' task was to find particular point symbol on the map as fast as possible. Scanpath comparison is one group of the eye-tracking data analyses methods used for revealing the strategy of the respondents. In cartographic studies, the most commonly used application for scanpath comparison is eyePatterns that output is hierarchical clustering and a tree graph representing the relationships between analysed sequences. During an analysis of the algorithm generating a tree graph, it was found that the outputs do not correspond to the reality. We proceeded to the creation of a new tool called ScanGraph. This tool uses visualization of cliques in simple graphs and is freely available at www.eyetracking.upol.cz/scangraph. Results of the study proved the functionality of the tool and its suitability for analyses of different strategies of map readers. Based on the results of the tool, similar scanpaths were selected, and groups of respondents with similar strategies were identified. With this knowledge, it is possible to analyse the relationship between belonging to the group with similar strategy and data gathered from the questionnaire (age, sex, cartographic knowledge, etc.) or type of stimuli (2D, 3D map).

  15. Sensitivity of species to chemicals: dose-response characteristics for various test types (LC(50), LR(50) and LD(50)) and modes of action.

    PubMed

    Hendriks, A Jan; Awkerman, Jill A; de Zwart, Dick; Huijbregts, Mark A J

    2013-11-01

    While variable sensitivity of model species to common toxicants has been addressed in previous studies, a systematic analysis of inter-species variability for different test types, modes of action and species is as of yet lacking. Hence, the aim of the present study was to identify similarities and differences in contaminant levels affecting cold-blooded and warm-blooded species administered via different routes. To that end, data on lethal water concentrations LC50, tissue residues LR50 and oral doses LD50 were collected from databases, each representing the largest of its kind. LC50 data were multiplied by a bioconcentration factor (BCF) to convert them to internal concentrations that allow for comparison among species. For each endpoint data set, we calculated the mean and standard deviation of species' lethal level per compound. Next, the means and standard deviations were averaged by mode of action. Both the means and standard deviations calculated depended on the number of species tested, which is at odds with quality standard setting procedures. Means calculated from (BCF) LC50, LR50 and LD50 were largely similar, suggesting that different administration routes roughly yield similar internal levels. Levels for compounds interfering biochemically with elementary life processes were about one order of magnitude below that of narcotics disturbing membranes, and neurotoxic pesticides and dioxins induced death in even lower amounts. Standard deviations for LD50 data were similar across modes of action, while variability of LC50 values was lower for narcotics than for substances with a specific mode of action. The study indicates several directions to go for efficient use of available data in risk assessment and reduction of species testing. Copyright © 2013 Elsevier Inc. All rights reserved.

  16. The connection Between Plasma Protein Binding and Acute Toxicity as Determined by the LD50 Value.

    PubMed

    Svennebring, Andreas

    2016-02-01

    Preclinical Research A dataset of three drug classes (acids, bases, and neutrals) with LD50 values in mice was analysed to investigate a possible connection between high plasma protein binding and acute toxicity. Initially, it was found that high plasma protein binding was associated with toxicity for acids and neutrals, but after compensating for differences in lipophilicity, plasma protein binding was found not to be associated with toxicity. The therapeutic index established by the quotient between mouse LD50 and the defined daily dose was unaffected by both lipophilicity and plasma protein binding. © 2015 Wiley Periodicals, Inc.

  17. A genetic linkage map for the apicomplexan protozoan parasite Eimeria maxima and comparison with Eimeria tenella.

    PubMed

    Blake, Damer P; Oakes, Richard; Smith, Adrian L

    2011-02-01

    Eimeria maxima is one of the seven Eimeria spp. that infect the chicken and cause the disease coccidiosis. The well characterised immunogenicity and genetic diversity associated with E. maxima promote its use in genetics-led studies on avian coccidiosis. The development of a genetic map for E. maxima, presented here based upon 647 amplified fragment length polymorphism markers typed from 22 clonal hybrid lines and assembled into 13 major linkage groups, is a major new resource for work with this parasite. Comparison with genetic maps produced for other coccidial parasites indicates relatively high levels of genetic recombination. Conversion of ∼14% of the markers representing the major linkage groups to sequence characterised amplified region markers can provide a scaffold for the assembly of future genomic sequences as well as providing a foundation for more detailed genetic maps. Comparison with the Eimeria tenella genetic map produced 10years ago has revealed a less biased marker distribution, with no more than nine markers mapped within any unresolved heritable unit. Nonetheless, preliminary bioinformatic characterisation of the three largest publicly available genomic E. maxima sequences suggest that the feature-poor/feature-rich structure which has previously been found to define the first sequenced E. tenella chromosome also defines the E. maxima genome. The significance of such a segmented genome and the apparent potential for variation in genetic recombination will be relevant to haplotype stability and the longevity of future anticoccidial strategies based upon multiple loci targeted by novel chemotherapeutic drugs or recombinant subunit vaccines. Copyright © 2010 Australian Society for Parasitology Inc. Published by Elsevier Ltd. All rights reserved.

  18. A study of an orbital radar mapping mission to Venus. Volume 2: Configuration comparisons and systems evaluation

    NASA Technical Reports Server (NTRS)

    1973-01-01

    Configuration comparisons and systems evaluation for the orbital radar mapping mission of the planet Venus are discussed. Designs are recommended which best satisfy the science objectives of the Venus radar mapping concept. Attention is given to the interaction and integration of those specific mission-systems recommendations with one another, and the final proposed designs are presented. The feasibility, cost, and scheduling of these configurations are evaluated against assumptions of reasonable state-of-the-art growth and space funding expectations.

  19. Geological Mapping of Fortuna Tessera (V-2): Venus and Earth's Archean Process Comparisons

    NASA Technical Reports Server (NTRS)

    Head, James W.; Hurwitz,D. M.; Ivanov, M. A.; Basilevsky, A. T.; Kumar, P. Senthil

    2008-01-01

    The geological features, structures, thermal conditions, interpreted processes, and outstanding questions related to both the Earth's Archean and Venus share many similarities and we are using a problem-oriented approach to Venus mapping, guided by insight from the Archean record of the Earth, to gain new insight into the evolution of Venus and Earth's Archean. The Earth's preserved and well-documented Archean record provides important insight into high heat-flux tectonic and magmatic environments and structures and the surface of Venus reveals the current configuration and recent geological record of analogous high-temperature environments unmodified by subsequent several billion years of segmentation and overprinting, as on Earth. Elsewhere we have addressed the nature of the Earth's Archean, the similarities to and differences from Venus, and the specific Venus and Earth-Archean problems on which progress might be made through comparison. Here we present the major goals of the Venus-Archean comparison and show how preliminary mapping of the geology of the V-2 Fortuna Tessera quadrangle is providing insight on these problems. We have identified five key themes and questions common to both the Archean and Venus, the assessment of which could provide important new insights into the history and processes of both planets.

  20. Mapping quantitative trait loci for fear-like behaviors in mice.

    PubMed

    Gershenfeld, H K; Paul, S M

    1997-11-15

    Two mouse models developed for screening anxiolytic drugs were selected for genetic analysis, namely "wall-seeking" tendency in an open field ("thigmotaxis") and the light-to-dark transition (LD) paradigm, a conflict test. These tests measure differences in naturalistic tendencies of mice to explore a novel environment and to avoid a bright light or the center of an open field. In an F2 intercross of two strains of mice (A/J and C57BL/6J) that differ markedly in these behaviors, we estimated a broad sense heritability ranging from 0.3 to 0.59. With this intercross (n = 518), we have mapped several quantitative trait loci (QTL) for these behaviors by performing a genome-wide search. A significant QTL on chromosome 10 (near D10Mit237; LOD of 9.3) that affects LD behavior was identified, and suggestive QTL (LOD > 2.8) were mapped to chromosomes 6, 15, 19, and X. For center time behaviors, QTL were identified on chromosome 1 (LOD of 7.7 and 4.0 for the initial 5-min epoch and the first trial average of the next two 5-min epochs, respectively), and suggestive QTL (LOD > 2.8) were mapped to chromosomes 6 and 14. These QTL individually explain from 2.3 to 8.4% of the phenotypic variance. Collectively, the multiple independent QTL explain from 3.5 to 26.5% of the F2 population's phenotypic variance, depending on the trait. The complexity and heterogeneity of the genetic factors underlying these fear-like behaviors are illustrated by the lack of shared QTL between paradigms and by mapping different QTL for repeated trials of behavior. The identification of QTL affecting individual differences in fear-like behavior may lead to the identification of new gene products and pathways that modulate behavior, providing targets for rational drug design.

  1. Linkage disequilibrium, SNP frequency change due to selection, and association mapping in popcorn chromosome regions containing QTLs for quality traits

    PubMed Central

    Paes, Geísa Pinheiro; Viana, José Marcelo Soriano; Silva, Fabyano Fonseca e; Mundim, Gabriel Borges

    2016-01-01

    Abstract The objectives of this study were to assess linkage disequilibrium (LD) and selection-induced changes in single nucleotide polymorphism (SNP) frequency, and to perform association mapping in popcorn chromosome regions containing quantitative trait loci (QTLs) for quality traits. Seven tropical and two temperate popcorn populations were genotyped for 96 SNPs chosen in chromosome regions containing QTLs for quality traits. The populations were phenotyped for expansion volume, 100-kernel weight, kernel sphericity, and kernel density. The LD statistics were the difference between the observed and expected haplotype frequencies (D), the proportion of D relative to the expected maximum value in the population, and the square of the correlation between the values of alleles at two loci. Association mapping was based on least squares and Bayesian approaches. In the tropical populations, D-values greater than 0.10 were observed for SNPs separated by 100-150 Mb, while most of the D-values in the temperate populations were less than 0.05. Selection for expansion volume indirectly led to increase in LD values, population differentiation, and significant changes in SNP frequency. Some associations were observed for expansion volume and the other quality traits. The candidate genes are involved with starch, storage protein, lipid, and cell wall polysaccharides synthesis. PMID:27007903

  2. Linkage disequilibrium, SNP frequency change due to selection, and association mapping in popcorn chromosome regions containing QTLs for quality traits.

    PubMed

    Paes, Geísa Pinheiro; Viana, José Marcelo Soriano; Silva, Fabyano Fonseca E; Mundim, Gabriel Borges

    2016-03-01

    The objectives of this study were to assess linkage disequilibrium (LD) and selection-induced changes in single nucleotide polymorphism (SNP) frequency, and to perform association mapping in popcorn chromosome regions containing quantitative trait loci (QTLs) for quality traits. Seven tropical and two temperate popcorn populations were genotyped for 96 SNPs chosen in chromosome regions containing QTLs for quality traits. The populations were phenotyped for expansion volume, 100-kernel weight, kernel sphericity, and kernel density. The LD statistics were the difference between the observed and expected haplotype frequencies (D), the proportion of D relative to the expected maximum value in the population, and the square of the correlation between the values of alleles at two loci. Association mapping was based on least squares and Bayesian approaches. In the tropical populations, D-values greater than 0.10 were observed for SNPs separated by 100-150 Mb, while most of the D-values in the temperate populations were less than 0.05. Selection for expansion volume indirectly led to increase in LD values, population differentiation, and significant changes in SNP frequency. Some associations were observed for expansion volume and the other quality traits. The candidate genes are involved with starch, storage protein, lipid, and cell wall polysaccharides synthesis.

  3. Supervised versus unsupervised technology-based levodopa monitoring in Parkinson's disease: an intrasubject comparison.

    PubMed

    Lopane, Giovanna; Mellone, Sabato; Corzani, Mattia; Chiari, Lorenzo; Cortelli, Pietro; Calandra-Buonaura, Giovanna; Contin, Manuela

    2018-06-01

    We aimed to assess the intrasubject reproducibility of a technology-based levodopa (LD) therapeutic monitoring protocol administered in supervised versus unsupervised conditions in patients with Parkinson's disease (PD). The study design was pilot, intrasubject, single center, open and prospective. Twenty patients were recruited. Patients performed a standardized monitoring protocol instrumented by an ad hoc embedded platform after their usual first morning LD dose in two different randomized ambulatory sessions: one under a physician's supervision, the other self-administered. The protocol is made up of serial motor and non-motor tests, including alternate finger tapping, Timed Up and Go test, and measurement of blood pressure. Primary motor outcomes included comparisons of intrasubject LD subacute motor response patterns over the 3-h test in the two experimental conditions. Secondary outcomes were the number of intrasession serial test repetitions due to technical or handling errors and patients' satisfaction with the unsupervised LD monitoring protocol. Intrasubject LD motor response patterns were concordant between the two study sessions in all patients but one. Platform handling problems averaged 4% of total planned serial tests for both sessions. Ninety-five percent of patients were satisfied with the self-administered LD monitoring protocol. To our knowledge, this study is the first to explore the potential of unsupervised technology-based objective motor and non-motor tasks to monitor subacute LD dosing effects in PD patients. The results are promising for future telemedicine applications.

  4. Comparison of Signals from Gravitational Wave Detectors with Instantaneous Time-Frequency Maps

    NASA Technical Reports Server (NTRS)

    Stroeer, A.; Blackburn, L.; Camp, J.

    2011-01-01

    Gravitational wave astronomy relies on the use of multiple detectors, so that coincident detections may distinguish real signals from instrumental artifacts, and also so that relative timing of signals can provide the sky position of sources. We show that the comparison of instantaneous time-frequency and time-amplitude maps provided by the Hilbert-Huang Transform (HHT) can be used effectively for relative signal timing of common signals, to discriminate between the case of identical coincident signals and random noise coincidences and to provide a classification of signals based on their time-frequency trajectories. The comparison is done with a X(sup 2) goodness-offit method which includes contributions from both the instantaneous amplitude and frequency components of the HHT to match two signals in the time domain. This approach naturally allows the analysis of waveforms with strong frequency modulation.

  5. Oral and intraperitoneal LD50 of thymoquinone, an active principle of Nigella sativa, in mice and rats.

    PubMed

    Al-Ali, Amein; Alkhawajah, Abdul Aziz; Randhawa, Mohammad Akram; Shaikh, Nisar Ahmed

    2008-01-01

    Thymoquinone is the major active principle of Nigella sativa (N. sativa) and constitutes about 30% of its volatile oil or ether extract. N. sativa oil and seed are commonly used as a natural remedy for many ailments. Using modern scientific techniques, a number of pharmacological actions of N. sativa have been investigated including immunostimulant, anti-inflammatory, anticancer, antioxidant, antihistaminic, antiasthmatic, hypoglycemic, antimicrobial and antiparasitic. There are only few reports regarding the toxicity of thymoquinone. The present study was carried out to determine LD50 of thymoquinone both in mice and rats, orally as well as intraperitoneall, by the method of Miller and Tainter. Autopsy and histopathology of liver, kidney, heart and lungs were also determined. The LD50 in mice after intraperitoneal injection was determined to be 104.7 mg/kg (89.7-119.7, 95% confidence interval) and after oral ingestion was 870.9 mg/kg (647.1-1094.8, 95% confidence interval). Whereas, LD50 in rats after intraperitoneal injection was determined to be 57.5 mg/kg (45.6-69.4, 95% confidence intervals) and after oral ingestion was 794.3 mg/kg (469.8-1118.8, 95% confidence intervals). The LD50 values presented here after intraperitoneal injection and oral gavages are 10-15 times and 100-150 times greater than doses of thymoquinone reported for its anti-inflammatory, anti-oxidant and anti-cancer effects. Thymoquinone is a relatively safe compound, particularly when given orally to experimental animals.

  6. Attention deficit and hyperactivity disorder (ADHD) and learning disabilities (LD): adolescents perspective.

    PubMed

    Brook, Uzi; Boaz, Mona

    2005-08-01

    Three hundred and eight pupils in the age group 12-18 years were interviewed and examined. They had been diagnosed as having attention deficit and hyperactivity disorder (ADHD) and learning disabilities (LD), and were attending a high school devoted to special education. Their classification into subgroups was as follows: ADHD - inattentive (I) = 22.1%, ADHD - hyperactivity/impulsivity (HI) = 12.3% and combined = 42.2%. Only 25% of them were treated by methylphenidate (Ritalin). Ninety-four percent of them were diagnosed with comorbidity of 'learning disabilities'. Thirty-four percent of them reported being severely stressed when going to school and sitting in class. Their complaints were: tiredness and excessive needs to sleep, frequent quarrelling with close friends, feeling different from other classmates and having low self-esteem (SE). They complaint that their parents don't understand them. Things that irritated them the most were being lied to and coercion by others. The authors suggest to consider ADHD/LD as neurobehavioral disability. It is mandatory to prepare them for adult life with proper social skills and a suitable occupation.

  7. A comparison of cataloged variation between International HapMap Consortium and 1000 Genomes Project data.

    PubMed

    Buchanan, Carrie C; Torstenson, Eric S; Bush, William S; Ritchie, Marylyn D

    2012-01-01

    Since publication of the human genome in 2003, geneticists have been interested in risk variant associations to resolve the etiology of traits and complex diseases. The International HapMap Consortium undertook an effort to catalog all common variation across the genome (variants with a minor allele frequency (MAF) of at least 5% in one or more ethnic groups). HapMap along with advances in genotyping technology led to genome-wide association studies which have identified common variants associated with many traits and diseases. In 2008 the 1000 Genomes Project aimed to sequence 2500 individuals and identify rare variants and 99% of variants with a MAF of <1%. To determine whether the 1000 Genomes Project includes all the variants in HapMap, we examined the overlap between single nucleotide polymorphisms (SNPs) genotyped in the two resources using merged phase II/III HapMap data and low coverage pilot data from 1000 Genomes. Comparison of the two data sets showed that approximately 72% of HapMap SNPs were also found in 1000 Genomes Project pilot data. After filtering out HapMap variants with a MAF of <5% (separately for each population), 99% of HapMap SNPs were found in 1000 Genomes data. Not all variants cataloged in HapMap are also cataloged in 1000 Genomes. This could affect decisions about which resource to use for SNP queries, rare variant validation, or imputation. Both the HapMap and 1000 Genomes Project databases are useful resources for human genetics, but it is important to understand the assumptions made and filtering strategies employed by these projects.

  8. Story Mapping and Its Effects on the Writing Fluency and Word Diversity of Students with Learning Disabilities

    ERIC Educational Resources Information Center

    Li, Daqi

    2007-01-01

    Students with learning disabilities (LD) often experience difficulties in writing fluently and using a diversity of words. To help these students, specific and effective writing strategies must be incorporated into instruction and demonstrated to them through modeling. This study examined the effectiveness of using a story map and story map…

  9. Does the subjective quality of life of children with specific learning disabilities (SpLD) agree with their parents' proxy reports?

    PubMed

    Rotsika, V; Coccossis, M; Vlassopoulos, M; Papaeleftheriou, E; Sakellariou, K; Anagnostopoulos, D C; Kokkevi, A; Skevington, S

    2011-10-01

    The aim of the present study was to investigate agreement between child-parent proxy reports on quality of life (QoL) in children with specific learning disabilities (SpLD) and in a control group of typically developing children. One hundred and sixteen children aged 8-14 years with SpLD, and 312 same age typically developing children with their parents (one or both), respectively, completed the child and parent versions of the KINDL(R) questionnaire. Values were analyzed with ANOVA and intra-class correlation coefficient (ICC). Significant mean differences were found between children with SpLD and their mother's proxy ratings. So, mothers reported significantly lower scores in the dimension of everyday functioning in school, but significantly higher scores regarding the child's physical and emotional well-being. For typically developing children, significant differences between children and parents' proxy ratings were found in physical well-being and self-esteem with both parents reporting higher scores. Concerning ICC, correlations were few and low in the SpLD group but more robust in the typically developing child-parent proxy ratings with values ranging from 0.22 to 0.46. In the case of SpLD, the child's problem area, which is reflected in the KINDL(R) dimension of everyday functioning in school, seems to be an issue of controversial value that may be differentially perceived by children and their mothers. Further, it can be argued that as mothers seemed to perceive in a more negative way the child's QoL at school, they were at the same time attempting to counterbalance their reactions by overestimating the child's physical and emotional well-being. Besides differences, there is a tendency even low for mothers and children with SpLD to converge toward similar perceptions regarding the child's physical and emotional well-being and satisfaction with friends that is showing some rather common understanding of the child's overall well-being and his

  10. A Targeted Capture Linkage Map Anchors the Genome of the Schistosomiasis Vector Snail, Biomphalaria glabrata.

    PubMed

    Tennessen, Jacob A; Bollmann, Stephanie R; Blouin, Michael S

    2017-07-05

    The aquatic planorbid snail Biomphalaria glabrata is one of the most intensively-studied mollusks due to its role in the transmission of schistosomiasis. Its 916 Mb genome has recently been sequenced and annotated, but it remains poorly assembled. Here, we used targeted capture markers to map over 10,000 B. glabrata scaffolds in a linkage cross of 94 F1 offspring, generating 24 linkage groups (LGs). We added additional scaffolds to these LGs based on linkage disequilibrium (LD) analysis of targeted capture and whole-genome sequences of 96 unrelated snails. Our final linkage map consists of 18,613 scaffolds comprising 515 Mb, representing 56% of the genome and 75% of genic and nonrepetitive regions. There are 18 large (> 10 Mb) LGs, likely representing the expected 18 haploid chromosomes, and > 50% of the genome has been assigned to LGs of at least 17 Mb. Comparisons with other gastropod genomes reveal patterns of synteny and chromosomal rearrangements. Linkage relationships of key immune-relevant genes may help clarify snail-schistosome interactions. By focusing on linkage among genic and nonrepetitive regions, we have generated a useful resource for associating snail phenotypes with causal genes, even in the absence of a complete genome assembly. A similar approach could potentially improve numerous poorly-assembled genomes in other taxa. This map will facilitate future work on this host of a serious human parasite. Copyright © 2017 Tennessen et al.

  11. College Students with ADHD and LD: Effects of Support Services on Academic Performance

    ERIC Educational Resources Information Center

    DuPaul, George J.; Dahlstrom-Hakki, Ibrahim; Gormley, Matthew J.; Fu, Qiong; Pinho, Trevor D.; Banerjee, Manju

    2017-01-01

    Two relatively common disabilities reported by college students are attention-deficit/hyperactivity disorder (ADHD) and learning disabilities (LD). Many questions remain regarding how best to support these students and whether services such as advising, coaching, and tutoring lead to significant academic gains. The current study examined the…

  12. Diagnosis and Treatment of Reading Disabilities Based on the Component Model of Reading: An Alternative to the Discrepancy Model of LD

    ERIC Educational Resources Information Center

    Aaron, P. G.; Joshi, R. Malatesha; Gooden, Regina; Bentum, Kwesi E.

    2008-01-01

    Currently, learning disabilities (LD) are diagnosed on the basis of the discrepancy between students' IQ and reading achievement scores. Students diagnosed with LD often receive remedial instruction in resource rooms. The available evidence suggests that the educational policy based on this discrepancy model has not yielded satisfactory results.…

  13. Effective L/D: A Theoretical Approach to the Measurement of Aero-Structural Efficiency in Aircraft Design

    NASA Technical Reports Server (NTRS)

    Guynn, Mark D.

    2015-01-01

    There are many trade-offs in aircraft design that ultimately impact the overall performance and characteristics of the final design. One well recognized and well understood trade-off is that of wing weight and aerodynamic efficiency. Higher aerodynamic efficiency can be obtained by increasing wing span, usually at the expense of higher wing weight. The proper balance of these two competing factors depends on the objectives of the design. For example, aerodynamic efficiency is preeminent for sailplanes and long slender wings result. Although the wing weight-drag trade is universally recognized, aerodynamic efficiency and structural efficiency are not usually considered in combination. This paper discusses the concept of "aero-structural efficiency," which combines weight and drag characteristics. A metric to quantify aero-structural efficiency, termed effective L/D, is then derived and tested with various scenarios. Effective L/D is found to be a practical and robust means to simultaneously characterize aerodynamic and structural efficiency in the context of aircraft design. The primary value of the effective L/D metric is as a means to better communicate the combined system level impacts of drag and structural weight.

  14. Comparison of 16-Channel Laser Photoreceivers for Topographic Mapping

    NASA Technical Reports Server (NTRS)

    Krainak, Michael A.; Yang, Guangning; Sun, XiaoIi; Lu, Wei; Bai, Xiaogang; Yuan, Ping; McDonald, Paul; Boisvert, Joseph; Woo, Robyn; Wan, Kam; hide

    2011-01-01

    Topographic mapping lidar instruments must be able to detect extremely weak laser return signals from high altitudes including orbital distance. The signals have a wide dynamic range caused by the variability in atmospheric transmission and surface reflectance under a fast moving spacecraft. Ideally, lidar detectors should be able to detect laser signal return pulses at the single photon level and produce linear output for multiple photon events. Silicon avalanche photodiode (APO) detectors have been used in most space lidar receivers to date. Their sensitivity is typically hundreds of photons per pulse, and is limited by the quantum efficiency, APO gain noise, dark current, and preamplifier noise. NASA is pursuing three approaches for a 16-channel laser photoreceiver for use on the next generation direct-detection airborne and spacebome lidars. We present our measurement results and a comparison of their performance.

  15. Fine-Scale Map of Encyclopedia of DNA Elements Regions in the Korean Population

    PubMed Central

    Yoo, Yeon-Kyeong; Ke, Xiayi; Hong, Sungwoo; Jang, Hye-Yoon; Park, Kyunghee; Kim, Sook; Ahn, TaeJin; Lee, Yeun-Du; Song, Okryeol; Rho, Na-Young; Lee, Moon Sue; Lee, Yeon-Su; Kim, Jaeheup; Kim, Young J.; Yang, Jun-Mo; Song, Kyuyoung; Kimm, Kyuchan; Weir, Bruce; Cardon, Lon R.; Lee, Jong-Eun; Hwang, Jung-Joo

    2006-01-01

    The International HapMap Project aims to generate detailed human genome variation maps by densely genotyping single-nucleotide polymorphisms (SNPs) in CEPH, Chinese, Japanese, and Yoruba samples. This will undoubtedly become an important facility for genetic studies of diseases and complex traits in the four populations. To address how the genetic information contained in such variation maps is transferable to other populations, the Korean government, industries, and academics have launched the Korean HapMap project to genotype high-density Encyclopedia of DNA Elements (ENCODE) regions in 90 Korean individuals. Here we show that the LD pattern, block structure, haplotype diversity, and recombination rate are highly concordant between Korean and the two HapMap Asian samples, particularly Japanese. The availability of information from both Chinese and Japanese samples helps to predict more accurately the possible performance of HapMap markers in Korean disease-gene studies. Tagging SNPs selected from the two HapMap Asian maps, especially the Japanese map, were shown to be very effective for Korean samples. These results demonstrate that the HapMap variation maps are robust in related populations and will serve as an important resource for the studies of the Korean population in particular. PMID:16702437

  16. A comparison of cataloged variation between International HapMap Consortium and 1000 Genomes Project data

    PubMed Central

    Buchanan, Carrie C; Torstenson, Eric S; Bush, William S

    2012-01-01

    Background Since publication of the human genome in 2003, geneticists have been interested in risk variant associations to resolve the etiology of traits and complex diseases. The International HapMap Consortium undertook an effort to catalog all common variation across the genome (variants with a minor allele frequency (MAF) of at least 5% in one or more ethnic groups). HapMap along with advances in genotyping technology led to genome-wide association studies which have identified common variants associated with many traits and diseases. In 2008 the 1000 Genomes Project aimed to sequence 2500 individuals and identify rare variants and 99% of variants with a MAF of <1%. Methods To determine whether the 1000 Genomes Project includes all the variants in HapMap, we examined the overlap between single nucleotide polymorphisms (SNPs) genotyped in the two resources using merged phase II/III HapMap data and low coverage pilot data from 1000 Genomes. Results Comparison of the two data sets showed that approximately 72% of HapMap SNPs were also found in 1000 Genomes Project pilot data. After filtering out HapMap variants with a MAF of <5% (separately for each population), 99% of HapMap SNPs were found in 1000 Genomes data. Conclusions Not all variants cataloged in HapMap are also cataloged in 1000 Genomes. This could affect decisions about which resource to use for SNP queries, rare variant validation, or imputation. Both the HapMap and 1000 Genomes Project databases are useful resources for human genetics, but it is important to understand the assumptions made and filtering strategies employed by these projects. PMID:22319179

  17. The Impact of the Flynn Effect on LD Diagnoses in Special Education

    ERIC Educational Resources Information Center

    Kanaya, Tomoe; Ceci, Stephen

    2012-01-01

    Because of the Flynn effect, IQ scores rise as a test norm ages but drop on the introduction of a newly revised test norm. The purpose of the current study was to determine the impact of the Flynn effect on learning disability (LD) diagnoses, the most prevalent special education diagnosis in the United States. Using a longitudinal sample of 875…

  18. Development and Genetic Characterization of an Advanced Backcross-Nested Association Mapping (AB-NAM) Population of Wild × Cultivated Barley

    PubMed Central

    Nice, Liana M.; Steffenson, Brian J.; Brown-Guedira, Gina L.; Akhunov, Eduard D.; Liu, Chaochih; Kono, Thomas J. Y.; Morrell, Peter L.; Blake, Thomas K.; Horsley, Richard D.; Smith, Kevin P.; Muehlbauer, Gary J.

    2016-01-01

    The ability to access alleles from unadapted germplasm collections is a long-standing problem for geneticists and breeders. Here we developed, characterized, and demonstrated the utility of a wild barley advanced backcross-nested association mapping (AB-NAM) population. We developed this population by backcrossing 25 wild barley accessions to the six-rowed malting barley cultivar Rasmusson. The 25 wild barley parents were selected from the 318 accession Wild Barley Diversity Collection (WBDC) to maximize allelic diversity. The resulting 796 BC2F4:6 lines were genotyped with 384 SNP markers, and an additional 4022 SNPs and 263,531 sequence variants were imputed onto the population using 9K iSelect SNP genotypes and exome capture sequence of the parents, respectively. On average, 96% of each wild parent was introgressed into the Rasmusson background, and the population exhibited low population structure. While linkage disequilibrium (LD) decay (r2 = 0.2) was lowest in the WBDC (0.36 cM), the AB-NAM (9.2 cM) exhibited more rapid LD decay than comparable advanced backcross (28.6 cM) and recombinant inbred line (32.3 cM) populations. Three qualitative traits: glossy spike, glossy sheath, and black hull color were mapped with high resolution to loci corresponding to known barley mutants for these traits. Additionally, a total of 10 QTL were identified for grain protein content. The combination of low LD, negligible population structure, and high diversity in an adapted background make the AB-NAM an important tool for high-resolution gene mapping and discovery of novel allelic variation using wild barley germplasm. PMID:27182953

  19. Links among Social Status, Service Delivery Mode, and Service Delivery Preference in LD, Low-Achieving, and Normally Achieving Elementary-Aged Children.

    ERIC Educational Resources Information Center

    Le Mare, Lucy; de la Ronde, Marie

    2000-01-01

    Relations among social status, current service delivery, and service delivery preferences were examined in 42 students with learning disabilities (LD), 40 low-achieving, and 42 average/high-achieving students in grades 2-4 and 6-7. Most students preferred pullout service to in-class service. Only among LD students were self- and peer-rated social…

  20. Pluralizing Methodologies in the Field of LD: From "What Works" to What Matters

    ERIC Educational Resources Information Center

    Ferri, Beth A.; Gallagher, Deborah; Connor, David J.

    2011-01-01

    The field of learning disabilities (LD) has a complex and complicated history. Tensions over definitions, eligibility criteria, service delivery models, and best practices, as well as epistemological debates, have been a part of that history from its inception. Given our collective struggles, as well as the current realities facing the field,…

  1. The End of Innocence: Historiography and Representation in the Discursive Practice of LD

    ERIC Educational Resources Information Center

    Artiles, Alfredo J.

    2004-01-01

    In this article, I discuss two interrelated sets of challenges that the discursive practice of learning disability (LD) will need to address, namely, issues associated with the development of a historiography of special education and a more complex understanding of representation issues. I use social theory to address these challenges and raise…

  2. LD50 and repellent effects of essential oils from Argentinian wild plant species on Varroa destructor.

    PubMed

    Ruffinengo, Sergio; Eguaras, Martin; Floris, Ignazio; Faverin, Claudia; Bailac, Pedro; Ponzi, Marta

    2005-06-01

    The repellent and acaricidal effects of some essential oils from the most typical wild plant species of northern Patagonia, Argentina, on Varroa destructor Anderson & Trueman were evaluated using a complete exposure test. Honey bees, Apis mellifera L., and mites (five specimens of each per dish) were introduced in petri dishes having different oil concentrations (from 0.1 to 25 micro per cage). Survival of bees and mites was registered after 24, 48, and 72 h. An attraction/repellence test was performed using a wax tube impregnated with essential oil and another tube containing wax only. The lowest LD50 values for mites were registered for Acantholippia seriphioides (A. Gray) Mold. (1.27 microl per cage) and Schinus molle L. (2.65 microl per cage) after 24 h, and for Wedelia glauca (Ortega) O. Hoffm. ex Hicken (0.59 microl per cage) and A. seriphioides (1.09 microl per cage) after 72 h of treatment. The oil with the highest selectivity ratio (A. mellifera LD50/V. destructor LD50) was the one extracted from S. molle (>16). Oils of Lippia junelliana (Mold.) Troncoso, Minthostachys mollis (HBK) Grieseb., and Lippia turbinata Grieseb. mixed with wax had repellent properties. None of the oils tested had attractive effects on Varroa mites.

  3. Whole genome sequences are required to fully resolve the linkage disequilibrium structure of human populations.

    PubMed

    Pengelly, Reuben J; Tapper, William; Gibson, Jane; Knut, Marcin; Tearle, Rick; Collins, Andrew; Ennis, Sarah

    2015-09-03

    An understanding of linkage disequilibrium (LD) structures in the human genome underpins much of medical genetics and provides a basis for disease gene mapping and investigating biological mechanisms such as recombination and selection. Whole genome sequencing (WGS) provides the opportunity to determine LD structures at maximal resolution. We compare LD maps constructed from WGS data with LD maps produced from the array-based HapMap dataset, for representative European and African populations. WGS provides up to 5.7-fold greater SNP density than array-based data and achieves much greater resolution of LD structure, allowing for identification of up to 2.8-fold more regions of intense recombination. The absence of ascertainment bias in variant genotyping improves the population representativeness of the WGS maps, and highlights the extent of uncaptured variation using array genotyping methodologies. The complete capture of LD patterns using WGS allows for higher genome-wide association study (GWAS) power compared to array-based GWAS, with WGS also allowing for the analysis of rare variation. The impact of marker ascertainment issues in arrays has been greatest for Sub-Saharan African populations where larger sample sizes and substantially higher marker densities are required to fully resolve the LD structure. WGS provides the best possible resource for LD mapping due to the maximal marker density and lack of ascertainment bias. WGS LD maps provide a rich resource for medical and population genetics studies. The increasing availability of WGS data for large populations will allow for improved research utilising LD, such as GWAS and recombination biology studies.

  4. Allometric scaling: analysis of LD50 data.

    PubMed

    Burzala-Kowalczyk, Lidia; Jongbloed, Geurt

    2011-04-01

    The need to identify toxicologically equivalent doses across different species is a major issue in toxicology and risk assessment. In this article, we investigate interspecies scaling based on the allometric equation applied to the single, oral LD (50) data previously analyzed by Rhomberg and Wolff. We focus on the statistical approach, namely, regression analysis of the mentioned data. In contrast to Rhomberg and Wolff's analysis of species pairs, we perform an overall analysis based on the whole data set. From our study it follows that if one assumes one single scaling rule for all species and substances in the data set, then β = 1 is the most natural choice among a set of candidates known in the literature. In fact, we obtain quite narrow confidence intervals for this parameter. However, the estimate of the variance in the model is relatively high, resulting in rather wide prediction intervals. © 2010 Society for Risk Analysis.

  5. Association mapping of seed and disease resistance traits in Theobroma cacao L.

    PubMed

    Motilal, Lambert A; Zhang, Dapeng; Mischke, Sue; Meinhardt, Lyndel W; Boccara, Michel; Fouet, Olivier; Lanaud, Claire; Umaharan, Pathmanathan

    2016-12-01

    Microsatellite and single nucleotide polymorphism markers that could be used in marker assisted breeding of cacao were identified for number of filled seeds, black pod resistance and witches' broom disease resistance. An association mapping approach was employed to identify markers for seed number and resistance to black pod and witches' broom disease (WBD) in cacao (Theobroma cacao L.). Ninety-five microsatellites (SSRs) and 775 single nucleotide polymorphisms (SNPs) were assessed on 483 unique trees in the International Cocoa Genebank Trinidad (ICGT). Linkage disequilibrium (LD) and association mapping studies were conducted to identify markers to tag the phenotypic traits. Decay of LD occurred over an average 9.3 cM for chromosomes 1-9 and 2.5 cM for chromosome 10. Marker/trait associations were generally identified based on general linear models (GLMs) that incorporated principal components from molecular information on relatedness factor. Seven markers (mTcCIR 8, 66, 126, 212; TcSNP368, 697, 1370) on chromosomes 1 and 9 were identified for number of filled seeds (NSEED). A single marker was found for black pod resistance (mTcCIR280) on chromosome 3, whereas six markers on chromosomes 4, 5, 6, 8, and 10 were detected for WBD (mTcCIR91, 183; TcSNP375, 720, 1230 and 1374). It is expected that this association mapping study in cacao would contribute to the knowledge of the genetic determinism of cocoa traits and that the markers identified herein would prove useful in marker assisted breeding of cacao.

  6. Translation and validation of the Spanish version of the Health of the Nation Outcome Scales for People with Learning Disabilities (HoNOS-LD).

    PubMed

    Esteba-Castillo, Susanna; Torrents-Rodas, David; García-Alba, Javier; Ribas-Vidal, Núria; Novell-Alsina, Ramon

    2016-12-21

    The Health of the Nation Outcome Scales for People with Learning Disabilities (HoNOS-LD) is a brief instrument that assesses functioning in people with intellectual development disorder and mental health problems/behaviour disorders. The aim of the present study was to examine the evidence on the validity of the scores based on the Spanish version of the HoNOS-LD. The study included 111 participants that were assessed by the Spanish version of the HoNOS-LD and other questionnaires that measured different variables related to the scale. Thirty-three participants were assessed by 2 examiners, and retested 7 days later, in order to study inter-examiner reliability and test-retest reliabilities. Based on clinical and conceptual criteria, and on the results of the parallel analysis, a factorial solution with one factor was selected. Internal consistency was good (Omega coefficient of 0.87). Inter-examiner and test-retest reliabilities were excellent (intraclass correlation coefficients of 0.95 and 0.98, respectively). Correlations between sections of the HoNOS-LD and the related instruments showed the expected direction, and were highly significant (P<.001), and the HoNOS-LD score increased with the intensity of the support required by the participants. These results showed evidence of the validity of association with other external variables. The Spanish version of the HoNOS-LD is a brief, valid and reliable instrument, which will enable a routine assessment of functioning for different uses, including diagnosis and intervention. Copyright © 2016 SEP y SEPB. Publicado por Elsevier España, S.L.U. All rights reserved.

  7. Dose responses of in vivo- and in vitro-produced strains of gypsy moth (Lepidoptera: Lymantriidae) nucleopolyhedrovirus (LdMNPV) applied with and without the virus enhancer Blankophor BBH

    Treesearch

    John D. Podgwaite; James M. Slavicek; Kevin W. Thorpe; Ralph E. Webb; Roger W. Fuester; Vincent D' Amico; Randel A. Peiffer; Michael A. Valenti

    2013-01-01

    The gypsy moth, Lymantria dispar L., nucleopolyhedrovirus (LdMNPV) product Gypchek is a microbial pesticide produced by the USDA Forest Service. Gypchek is a mixture of LdMNPV genotypes produced in vivo. Commercial interests prefer to develop a stable, high-potency genotype that can be produced at low cost, preferably in vitro. We sprayed 2 LdMNPV...

  8. From LD to Degree: Effective Techniques for the Student with a Learning Disability

    ERIC Educational Resources Information Center

    Del Viscovo, Joshua A.

    2009-01-01

    The purpose of this article is to espouse and highlight some essential ingredients for a student with learning disabilities and differences to survive outside of the K-12 setting. Many students with LD move to colleges and universities throughout the United States, and perhaps even the world. As they earn undergraduate and even graduate degrees,…

  9. QTLs for heading date and plant height under multiple environments in rice.

    PubMed

    Han, Zhongmin; Hu, Wei; Tan, Cong; Xing, Yongzhong

    2017-02-01

    Both heading date and plant height are important traits related to grain yield in rice. In this study, a recombinant inbred lines (RILs) population was used to map quantitative trait loci (QTLs) for both traits under 3 long-day (LD) environments and 1 short-day (SD) environment. A total of eight QTLs for heading date and three QTLs for plant height were detected by composite interval mapping under LD conditions. Additional one QTL for heading date and three QTLs for plant height were identified by Two-QTL model under LD conditions. Among them, major QTLs qHd7.1, qHd7.2 and qHd8 for heading date, and qPh1 and qPh7.1 for plant height were commonly detected. qHd7.1 and qHd7.2 were mapped to small regions of less than 1 cM. Genome position comparison of previously cloned genes with QTLs detected in this study revealed that qHd5 and qPh3.1 were two novel QTLs. The alleles of these QTLs increasing trait values were dispersed in both parents, which well explained the transgressive segregation observed in this population. In addition, the interaction between qHd7.1 and qHd8 was detected under all LD conditions. Multiple-QTL model analysis revealed that all QTLs and their interactions explained over 80% of heading date variation and 50% of plant height variation. Two heading date QTLs were detected under SD condition. Of them, qHd10 were commonly identified under LD condition. The difference in QTL detection between LD and SD conditions indicated most heading date QTLs are sensitive to photoperiod. These findings will benefit breeding design for heading date and plant height in rice.

  10. Mapping the Rust Resistant Loci MXC3 and MER in P. trichocarpa and Assessing the Intermarker Linkage Disequilibrium in MXC3 Region

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

    Yin, Tongming; Difazio, Stephen P.; Gunter, Lee E

    In an attempt to elucidate the molecular mechanisms of Melampsora rust resistance in Populus trichocarpa, we have mapped two resistance loci, MXC3 and MER, and intensively characterized the flanking genomic sequence for the MXC3 locus and the level of linkage disequilibrium (LD) in natural populations. We used an interspecific backcross pedigree and a genetic map that was highly saturated with AFLP and SSR markers, and assembled shotgun-sequence data in the region containing markers linked to MXC3. The two loci were mapped to different linkage groups. Linkage disequilibrium for MXC3 was confined to two closely linked regions spanning 34 and 16more » kb, respectively. The MXC3 region also contained six disease-resistance candidate genes. The MER and MXC3 loci are clearly distinct, and may have different mechanisms of resistance, as different classes of putative resistance genes were present near each locus. The suppressed recombination previously observed in the MXC3 region was possibly caused by extensive hemizygous rearrangements confined to the original parent tree. The relatively low observed LD may facilitate association studies using candidate genes for rust resistance, but will probably inhibit marker-aided selection.« less

  11. Assessing the value of phenotypic information from non-genotyped animals for QTL mapping of complex traits in real and simulated populations.

    PubMed

    Melo, Thaise P; Takada, Luciana; Baldi, Fernando; Oliveira, Henrique N; Dias, Marina M; Neves, Haroldo H R; Schenkel, Flavio S; Albuquerque, Lucia G; Carvalheiro, Roberto

    2016-06-21

    QTL mapping through genome-wide association studies (GWAS) is challenging, especially in the case of low heritability complex traits and when few animals possess genotypic and phenotypic information. When most of the phenotypic information is from non-genotyped animals, GWAS can be performed using the weighted single-step GBLUP (WssGBLUP) method, which permits to combine all available information, even that of non-genotyped animals. However, it is not clear to what extent phenotypic information from non-genotyped animals increases the power of QTL detection, and whether factors such as the extent of linkage disequilibrium (LD) in the population and weighting SNPs in WssGBLUP affect the importance of using information from non-genotyped animals in GWAS. These questions were investigated in this study using real and simulated data. Analysis of real data showed that the use of phenotypes of non-genotyped animals affected SNP effect estimates and, consequently, QTL mapping. Despite some coincidence, the most important genomic regions identified by the analyses, either using or ignoring phenotypes of non-genotyped animals, were not the same. The simulation results indicated that the inclusion of all available phenotypic information, even that of non-genotyped animals, tends to improve QTL detection for low heritability complex traits. For populations with low levels of LD, this trend of improvement was less pronounced. Stronger shrinkage on SNPs explaining lower variance was not necessarily associated with better QTL mapping. The use of phenotypic information from non-genotyped animals in GWAS may improve the ability to detect QTL for low heritability complex traits, especially in populations in which the level of LD is high.

  12. Fine-scale mapping of a locus for severe bipolar mood disorder on chromosome 18p11.3 in the Costa Rican population

    PubMed Central

    McInnes, L. Alison; Service, Susan K.; Reus, Victor I.; Barnes, Glenn; Charlat, Olga; Jawahar, Satya; Lewitzky, Steve; Yang, Qing; Duong, Quyen; Spesny, Mitzi; Araya, Carmen; Araya, Xinia; Gallegos, Alvaro; Meza, Luis; Molina, Julio; Ramirez, Rolando; Mendez, Roxana; Silva, Sandra; Fournier, Eduardo; Batki, Steven L.; Mathews, Carol A.; Neylan, Thomas; Glatt, Charles E.; Escamilla, Michael A.; Luo, David; Gajiwala, Paresh; Song, Terry; Crook, Stephen; Nguyen, Jasmine B.; Roche, Erin; Meyer, Joanne M.; Leon, Pedro; Sandkuijl, Lodewijk A.; Freimer, Nelson B.; Chen, Hong

    2001-01-01

    We have searched for genes predisposing to bipolar disorder (BP) by studying individuals with the most extreme form of the affected phenotype, BP-I, ascertained from the genetically isolated population of the Central Valley of Costa Rica (CVCR). The results of a previous linkage analysis on two extended CVCR BP-I pedigrees, CR001 and CR004, and of linkage disequilibrium (LD) analyses of a CVCR population sample of BP-I patients implicated a candidate region on 18p11.3. We further investigated this region by creating a physical map and developing 4 new microsatellite and 26 single-nucleotide polymorphism markers for typing in the pedigree and population samples. We report the results of fine-scale association analyses in the population sample, as well as evaluation of haplotypes in pedigree CR001. Our results suggest a candidate region containing six genes but also highlight the complexities of LD mapping of common disorders. PMID:11572994

  13. Fine-Mapping Angiotensin-Converting Enzyme Gene: Separate QTLs Identified for Hypertension and for ACE Activity

    PubMed Central

    Chung, Chia-Min; Wang, Ruey-Yun; Fann, Cathy S. J.; Chen, Jaw-Wen; Jong, Yuh-Shiun; Jou, Yuh-Shan; Yang, Hsin-Chou; Kang, Chih-Sen; Chen, Chien-Chung; Chang, Huan-Cheng; Pan, Wen-Harn

    2013-01-01

    Angiotensin-converting enzyme (ACE) has been implicated in multiple biological system, particularly cardiovascular diseases. However, findings associating ACE insertion/deletion polymorphism with hypertension or other related traits are inconsistent. Therefore, in a two-stage approach, we aimed to fine-map ACE in order to narrow-down the function-specific locations. We genotyped 31 single nucleotide polymorphisms (SNPs) of ACE from 1168 individuals from 305 young-onset (age ≤40) hypertension pedigrees, and found four linkage disequilibrium (LD) blocks. A tag-SNP, rs1800764 on LD block 2, upstream of and near the ACE promoter, was significantly associated with young-onset hypertension (p = 0.04). Tag-SNPs on all LD blocks were significantly associated with ACE activity (p-value: 10–16 to <10–33). The two regions most associated with ACE activity were found between exon13 and intron18 and between intron 20 and 3′UTR, as revealed by measured haplotype analysis. These two major QTLs of ACE activity and the moderate effect variant upstream of ACE promoter for young-onset hypertension were replicated by another independent association study with 842 subjects. PMID:23469169

  14. Latissimus dorsi (LD) free flap and reconstruction plate used for extensive maxillo-mandibular reconstruction after tumour ablation.

    PubMed

    Li, Bo-Han; Jung, Hun Jong; Choi, Sung-Won; Kim, Soung-Min; Kim, Myung-Jin; Lee, Jong-Ho

    2012-12-01

    The purpose of this study was to consider the indications and evaluate the clinical advantages and disadvantages including, results and complications, of immediate reconstruction using a latissimus dorsi (LD) free flap and reconstruction plate (R-plate) in advanced oro-mandibular tumour resection. Our cohort included 116 patients who underwent LD free flap and R-plate reconstruction. Flap survival, postoperative function, donor/recipient site complication and aesthetics were evaluated. Our series demonstrated a 99.1% flap survival rate. One case required a contralateral LD free flap reconstruction after the initial flap failed due to pedicle kinking. Twelve patients needed the plate to be removed and replaced (n=4, plate fracture; n=2, plate exposure) or definite reconstruction with free fibular flap and implant installation. Donor site complications included seroma accumulation, scarring, and discomfort of the shoulder girdle. The size of the skin paddle ranged from 6 × 10 cm to 12 × 18 cm (12 were double paddled).The facial contour was acceptable without sagging of the flap. The flap was tolerant to irradiation and was resistant to the exposure of the plate at the symphyseal arch. Our series of primary reconstruction with LD free flaps and R-plates showed the retention of mandibular function and the reconstruction of considerably large soft tissue can be achieved successfully. This reconstruction scheme can be indicated for large-volume defects in the oro-mandibular area when the area cannot be covered by a single osteocutaneous free flap, has undergone extensive oncologic resection for advanced or high recurrence rate malignancy and when immediate postoperative chemotherapy and/or irradiation is necessary. Copyright © 2012 European Association for Cranio-Maxillo-Facial Surgery. Published by Elsevier Ltd. All rights reserved.

  15. Linkage Disequilibrium Mapping in Domestic Dog Breeds Narrows the Progressive Rod-Cone Degeneration (prcd) Interval and Identifies Ancestral Disease Transmitting Chromosome

    PubMed Central

    Goldstein, Orly; Zangerl, Barbara; Pearce-Kelling, Sue; Sidjanin, Duska J.; Kijas, James W.; Felix, Jeanette; Acland, Gregory M; Aguirre, Gustavo D.

    2014-01-01

    Canine progressive rod-cone degeneration (prcd) is a retinal disease previously mapped to a broad, gene-rich centromeric region of canine chromosome 9. As allelic disorders are present in multiple breeds, we used linkage disequilibrium (LD) to narrow the ∼6.4 Mb interval candidate region. Multiple dog breeds, each representing genetically isolated populations, were typed for SNPs and other polymorphisms identified from BACs. The candidate region was initially localized to a 1.5 Mb zero recombination interval between growth factor receptor-bound protein 2 (GRB2) and SEC14-like 1 (SEC14L). A fine-scale haplotype of the region was developed which reduced the LD interval to 106 Kb, and identified a conserved haplotype of 98 polymorphisms present in all prcd-affected chromosomes from 14 different dog breeds. The findings strongly suggest that a common ancestor transmitted the prcd disease allele to many of the modern dog breeds, and demonstrate the power of LD approach in the canine model. PMID:16859891

  16. LD-aminopterin in the canine homologue of human atopic dermatitis: a randomized, controlled trial reveals dosing factors affecting optimal therapy.

    PubMed

    Zebala, John A; Mundell, Alan; Messinger, Linda; Griffin, Craig E; Schuler, Aaron D; Kahn, Stuart J

    2014-01-01

    Options are limited for patients with atopic dermatitis (AD) who do not respond to topical treatments. Antifolate therapy with systemic methotrexate improves the disease, but is associated with adverse effects. The investigational antifolate LD-aminopterin may offer improved safety. It is not known how antifolate dose and dosing frequency affect efficacy in AD, but a primary mechanism is thought to involve the antifolate-mediated accumulation of 5-aminoimidazole-4-carboxamide ribonucleotide (AICAR). However, recent in vitro studies indicate that AICAR increases then decreases as a function of antifolate concentration. To address this issue and understand how dosing affects antifolate efficacy in AD, we examined the efficacy and safety of different oral doses and schedules of LD-aminopterin in the canine model of AD. This was a multi-center, double-blind trial involving 75 subjects with canine AD randomized to receive up to 12 weeks of placebo, once-weekly (0.007, 0.014, 0.021 mg/kg) or twice-weekly (0.007 mg/kg) LD-aminopterin. The primary efficacy outcome was the Global Score (GS), a composite of validated measures of disease severity and itch. GS improved in all once-weekly cohorts, with 0.014 mg/kg being optimal and significant (43%, P<0.01). The majority of improvement was seen by 8 weeks. In contrast, GS in the twice-weekly cohort was similar to placebo and worse than all once-weekly cohorts. Adverse events were similar across all treated cohorts and placebo. Once-weekly LD-aminopterin was safe and efficacious in canine AD. Twice-weekly dosing negated efficacy despite having the same daily and weekly dose as effective once-weekly regimens. Optimal dosing in this homologue of human AD correlated with the concentration-selective accumulation of AICAR in vitro, consistent with AICAR mediating LD-aminopterin efficacy in AD.

  17. LD-Aminopterin in the Canine Homologue of Human Atopic Dermatitis: A Randomized, Controlled Trial Reveals Dosing Factors Affecting Optimal Therapy

    PubMed Central

    Zebala, John A.; Mundell, Alan; Messinger, Linda; Griffin, Craig E.; Schuler, Aaron D.; Kahn, Stuart J.

    2014-01-01

    Background Options are limited for patients with atopic dermatitis (AD) who do not respond to topical treatments. Antifolate therapy with systemic methotrexate improves the disease, but is associated with adverse effects. The investigational antifolate LD-aminopterin may offer improved safety. It is not known how antifolate dose and dosing frequency affect efficacy in AD, but a primary mechanism is thought to involve the antifolate-mediated accumulation of 5-aminoimidazole-4-carboxamide ribonucleotide (AICAR). However, recent in vitro studies indicate that AICAR increases then decreases as a function of antifolate concentration. To address this issue and understand how dosing affects antifolate efficacy in AD, we examined the efficacy and safety of different oral doses and schedules of LD-aminopterin in the canine model of AD. Methods and Findings This was a multi-center, double-blind trial involving 75 subjects with canine AD randomized to receive up to 12 weeks of placebo, once-weekly (0.007, 0.014, 0.021 mg/kg) or twice-weekly (0.007 mg/kg) LD-aminopterin. The primary efficacy outcome was the Global Score (GS), a composite of validated measures of disease severity and itch. GS improved in all once-weekly cohorts, with 0.014 mg/kg being optimal and significant (43%, P<0.01). The majority of improvement was seen by 8 weeks. In contrast, GS in the twice-weekly cohort was similar to placebo and worse than all once-weekly cohorts. Adverse events were similar across all treated cohorts and placebo. Conclusions Once-weekly LD-aminopterin was safe and efficacious in canine AD. Twice-weekly dosing negated efficacy despite having the same daily and weekly dose as effective once-weekly regimens. Optimal dosing in this homologue of human AD correlated with the concentration-selective accumulation of AICAR in vitro, consistent with AICAR mediating LD-aminopterin efficacy in AD. PMID:25255447

  18. Accuracy, resolution, and cost comparisons between small format and mapping cameras for environmental mapping

    NASA Technical Reports Server (NTRS)

    Clegg, R. H.; Scherz, J. P.

    1975-01-01

    Successful aerial photography depends on aerial cameras providing acceptable photographs within cost restrictions of the job. For topographic mapping where ultimate accuracy is required only large format mapping cameras will suffice. For mapping environmental patterns of vegetation, soils, or water pollution, 9-inch cameras often exceed accuracy and cost requirements, and small formats may be better. In choosing the best camera for environmental mapping, relative capabilities and costs must be understood. This study compares resolution, photo interpretation potential, metric accuracy, and cost of 9-inch, 70mm, and 35mm cameras for obtaining simultaneous color and color infrared photography for environmental mapping purposes.

  19. Students classified as LD who received course substitutions for the college foreign language requirement: a replication study.

    PubMed

    Sparks, Richard L; Philips, Lois G; Javorsky, James

    2002-01-01

    This replication study examined whether 158 college students classified as learning disabled (LD) who were granted course substitutions for the foreign language (FL) requirement would display significant cognitive and academic achievement differences when grouped by levels of IQ-achievement and achievement-achievement discrepancy and by level of performance on an FL aptitude test (Modern Language Aptitude Test; MLAT), phonological/orthographic processing measures, and in FL courses. The results showed that there were few differences among groups with differing levels of IQ-achievement or achievement-achievement discrepancy (i.e., < 1.0 SD, 1.0-1.49 SD, and > 1.50 SD) on MLAT and American College Testing (ACT) scores, graduating grade point average (GPA), or college FL GPA. The results also showed that between groups who scored at or above versus below the 15th percentile (i.e., < 1.0 SD) on the MLAT, there were no differences on measures of graduating GPA, college FL GPA, native language skill, ACT score, and Verbal IQ. Demographic findings showed that 44% of these petition students met a minimum IQ-achievement discrepancy criterion (> or = 1.0 SD) for classification as LD. These findings suggest that many traditional assumptions about LD and FL learning are likely to be false.

  20. [Effects of pretreatment of lipid, midazolam and propofol on ropivacaine-induced convulsion and LD50 in rats].

    PubMed

    Lü, Xiao-lan; Wan, Fu-hong; Zuo, Yun-xia

    2012-09-04

    To assess the effects of lipid on ropivacaine-induced convulsion and LD50 in rats and compare with those of the traditional anticonvulsants midazolam and propofol. Protocol 1: A total of 120 SD rats (60 males, 60 females), weighing 200-300 g, were randomly assigned into 4 groups with equal males and females: lipid (L), midazolam (M) and propofol (P) and control (C). Rats were pretreated with 10 ml/kg lipid intravenously in group L, saline and 0.23 mg/kg midazolam (10 ml/kg in volume) sequentially in group M, saline and 4 mg/kg propofol (10 ml/kg in volume) in group P and saline 10 ml/kg in group C. Then ropivacaine 44 mg/kg (0.75%) was injected intraperitoneally into each rat. The convulsion rate in each group and the time of convulsion after ropivacaine injection were observed. Meanwhile, the plasma concentration of ropivacaine at the time of convulsion was measured. Protocol 2: Additional 100 male SD rats were used for the measurements of ropivacaine LD50 with different pretreatments including lipid, midazolam, propofol and saline through the up-and-down method. Rats were randomly assigned into 4 groups similarly as protocol 1. The doses of ropivacaine in each group were determined according to our pilot study and 6 dosage levels with the same interval ratio 8.5 was applied in each group. The doses of these pretreatment drugs and administration methods were similarly as protocol 1. The convulsion rate after 44 mg/kg ropivacaine ip injection was 43.3% in group C, 0% in group M, 13.3% in group P and 70% in group L. Lipid increased the convulsion rate significantly. The plasma concentration of ropivacaine at the time of convulsion was 1.65 ± 0.30 µg/kg in group C, 1.73 ± 0.14 µg/kg in group P and 3.45 ± 0.26 µg/kg in group L. The LD50 of ropivacaine in group C was 64.39 mg/kg, 88.40 mg/kg in group M and 90.20 mg/kg in group P and 55.45 mg/kg in group L. Midazolam and propofol not only decrease the convulsion rate of ropivacaine, but also increase its LD50

  1. Multipath interference test method using synthesized chirped signal from directly modulated DFB-LD with digital-signal-processing technique.

    PubMed

    Aida, Kazuo; Sugie, Toshihiko

    2011-12-12

    We propose a method of testing transmission fiber lines and distributed amplifiers. Multipath interference (MPI) is detected as a beat spectrum between a multipath signal and a direct signal using a synthesized chirped test signal with lightwave frequencies of f(1) and f(2) periodically emitted from a distributed feedback laser diode (DFB-LD). This chirped test pulse is generated using a directly modulated DFB-LD with a drive signal calculated using a digital signal processing technique (DSP). A receiver consisting of a photodiode and an electrical spectrum analyzer (ESA) detects a baseband power spectrum peak appearing at the frequency of the test signal frequency deviation (f(1)-f(2)) as a beat spectrum of self-heterodyne detection. Multipath interference is converted from the spectrum peak power. This method improved the minimum detectable MPI to as low as -78 dB. We discuss the detailed design and performance of the proposed test method, including a DFB-LD drive signal calculation algorithm with DSP for synthesis of the chirped test signal and experiments on single-mode fibers with discrete reflections. © 2011 Optical Society of America

  2. Increased mtDNA mutations with aging promotes amyloid accumulation and brain atrophy in the APP/Ld transgenic mouse model of Alzheimer’s disease

    PubMed Central

    2014-01-01

    Background The role of mitochondrial dysfunction has long been implicated in age-related brain pathology, including Alzheimer’s disease (AD). However, the mechanism by which mitochondrial dysfunction may cause neurodegeneration in AD is unclear. To model mitochondrial dysfunction in vivo, we utilized mice that harbor a knockin mutation that inactivates the proofreading function of mitochondrial DNA polymerase γ (PolgA D257A), so that these mice accumulate mitochondrial DNA mutations with age. PolgA D257A mice develop a myriad of mitochondrial bioenergetic defects and physical phenotypes that mimic premature ageing, with subsequent death around one year of age. Results We crossed the D257A mice with a well-established transgenic AD mouse model (APP/Ld) that develops amyloid plaques. We hypothesized that mitochondrial dysfunction would affect Aβ synthesis and/or clearance, thus contributing to amyloidogenesis and triggering neurodegeneration. Initially, we discovered that Aβ42 levels along with Aβ42 plaque density were increased in D257A; APP/Ld bigenic mice compared to APP/Ld monogenic mice. Elevated Aβ production was not responsible for increased amyloid pathology, as levels of BACE1, PS1, C99, and C83 were unchanged in D257A; APP/Ld compared to APP/Ld mice. However, the levels of a major Aβ clearance enzyme, insulin degrading enzyme (IDE), were reduced in mice with the D257A mutation, suggesting this as mechanism for increased amyloid load. In the presence of the APP transgene, D257A mice also exhibited significant brain atrophy with apparent cortical thinning but no frank neuron loss. D257A; APP/Ld mice had increased levels of 17 kDa cleaved caspase-3 and p25, both indicative of neurodegeneration. Moreover, D257A; APP/Ld neurons appeared morphologically disrupted, with swollen and vacuolated nuclei. Conclusions Overall, our results implicate synergism between the effects of the PolgA D257A mutation and Aβ in causing neurodegeneration. These findings

  3. RAB GTPASES ASSOCIATE WITH ISOLATED LIPID DROPLETS (LDS) AND SHOW ALTERED CONTENT AFTER ETHANOL ADMINISTRATION: POTENTIAL ROLE IN ALCOHOL-IMPAIRED LD METABOLISM

    PubMed Central

    Rasineni, Karuna; McVicker, Benita L.; Tuma, Dean J.; McNiven, Mark A.; Casey, Carol A.

    2013-01-01

    Background Alcoholic liver disease is manifested by the presence of fatty liver, primarily due to accumulation of hepatocellular lipid droplets (LDs). The presence of membrane-trafficking proteins (e.g. Rab GTPases) with LDs indicates that LDs may be involved in trafficking pathways known to be altered in ethanol damaged hepatocytes. Since these Rab GTPases are crucial regulators of protein trafficking, we examined the effect ethanol administration has on hepatic Rab protein content and association with LDs. Methods Male Wistar rats were pair-fed Lieber-DeCarli diets for 5 to 8 weeks. Whole liver and isolated LD fractions were analyzed. Identification of LDs and associated Rab proteins was performed in frozen liver or paraffin-embedded sections followed by immunohistochemical analysis. Results Lipid accumulation was characterized by larger LD vacuoles and increased total triglyceride content in ethanol-fed rats. Rabs 1, 2, 3d, 5, 7 and 18 were analyzed in post-nuclear supernatant (PNS) as well as LDs. All of the Rabs were found in the PNS, and Rabs 1, 2, 5 and 7 did not show alcohol-altered content, while Rab 3d content was reduced by over 80%, and Rab 18 also showed ethanol-induced reduction in content. Rab 3d was not found to associate with LDs, while all other Rabs were found in the LD fractions, and several showed an ethanol-related decrease (Rabs 2, 5, 7, 18). Immunohistochemical analysis revealed the enhanced content of a LD-associated protein, perilipin 2 (PLIN2) that was paralleled with an associated decrease of Rab 18 in ethanol-fed rat sections. Conclusion Chronic ethanol feeding was associated with increased PLIN2 and altered Rab GTPase content in enriched LD fractions. Although mechanisms driving these changes are not established, further studies on intracellular protein trafficking and LD biology after alcohol administration will likely contribute to our understanding of fatty liver disease. PMID:24117505

  4. Comparison of mapping algorithms used in high-throughput sequencing: application to Ion Torrent data

    PubMed Central

    2014-01-01

    Background The rapid evolution in high-throughput sequencing (HTS) technologies has opened up new perspectives in several research fields and led to the production of large volumes of sequence data. A fundamental step in HTS data analysis is the mapping of reads onto reference sequences. Choosing a suitable mapper for a given technology and a given application is a subtle task because of the difficulty of evaluating mapping algorithms. Results In this paper, we present a benchmark procedure to compare mapping algorithms used in HTS using both real and simulated datasets and considering four evaluation criteria: computational resource and time requirements, robustness of mapping, ability to report positions for reads in repetitive regions, and ability to retrieve true genetic variation positions. To measure robustness, we introduced a new definition for a correctly mapped read taking into account not only the expected start position of the read but also the end position and the number of indels and substitutions. We developed CuReSim, a new read simulator, that is able to generate customized benchmark data for any kind of HTS technology by adjusting parameters to the error types. CuReSim and CuReSimEval, a tool to evaluate the mapping quality of the CuReSim simulated reads, are freely available. We applied our benchmark procedure to evaluate 14 mappers in the context of whole genome sequencing of small genomes with Ion Torrent data for which such a comparison has not yet been established. Conclusions A benchmark procedure to compare HTS data mappers is introduced with a new definition for the mapping correctness as well as tools to generate simulated reads and evaluate mapping quality. The application of this procedure to Ion Torrent data from the whole genome sequencing of small genomes has allowed us to validate our benchmark procedure and demonstrate that it is helpful for selecting a mapper based on the intended application, questions to be addressed, and the

  5. Availability of endogenous peptides limits expression of an M3a-Ld major histocompatibility complex class I chimera

    PubMed Central

    1994-01-01

    Taking advantage of our understanding of the peptide specificity of the major histocompatibility complex class I-b molecule M3a, we sought to determine why these molecules are poorly represented on the cell surface. To this end we constructed a chimeric molecule with the alpha 1 and alpha 2 domains of M3a and alpha 3 of Ld thereby allowing use of available monoclonal antibodies to quantify surface expression. Transfected, but not control, B10.CAS2 (H-2M3b) cells were lysed readily by M3a-restricted monoclonal cytotoxic T lymphocytes. Thus, the chimera bound, trafficked, and presented endogenous mitochondrial peptides. However, despite high levels of M3a-Ld mRNA, transfectants were negative by surface staining. This finding was consistent with inefficient trafficking to the cell surface. Incubation at 26 degrees C, thought to permit trafficking of unoccupied heavy (H) chains, resulted in detectable cell surface expression of chimeric molecules. Incubation with exogenous peptide at 26 degrees C (but not at 37 degrees C) greatly enhanced expression of M3a-Ld molecules in a dose- dependent manner, suggesting stabilization of unoccupied molecules. Stable association of beta 2-microglobulin with the chimeric H chain was observed in labeled cell lysates only in the presence of exogenous specific peptide, indicating that peptide is required for the formation of a ternary complex. These results indicate that surface expression of M3a-Ld is limited largely by the steady-state availability of endogenous peptides. Since most known M3a-binding peptides are N- formylated, native M3a may normally be expressed at high levels only during infection by intracellular bacteria. PMID:8270862

  6. The Effects of a Story-Mapping Procedure to Improve the Comprehension Skills of Expository Text Passages for Elementary Students with Learning Disabilities

    ERIC Educational Resources Information Center

    Stagliano, Christina; Boon, Richard T.

    2009-01-01

    The purpose of this study was to examine the effects of using a story-mapping procedure to improve and enhance the reading comprehension skills using expository text passages for 3 fourth-grade students with learning disabilities (LD). The study was conducted in the resource classroom in which the participants regularly received reading…

  7. Variability of LD50 Values from Rat Oral Acute Toxicity Studies: Implications for Alternative Model Development

    EPA Science Inventory

    Alternative models developed for estimating acute systemic toxicity are generally evaluated using in vivo LD50 values. However, in vivo acute systemic toxicity studies can produce variable results, even when conducted according to accepted test guidelines. This variability can ma...

  8. Lateral directional requirements for a low L/D aeromaneuvering orbital transfer vehicle

    NASA Technical Reports Server (NTRS)

    Gamble, J. D.; Spratlin, K. M.; Skalecki, L. M.

    1984-01-01

    The lateral-directional aerodynamics and control requirements for a low L/D (0.3) aeromaneuvering orbital transfer vehicle are evaluated. A lateral directional RCS control concept that permits a linearized analysis is utilized to evaluate the effect of Dutch Roll frequency and damping on the atmospheric guidance and control performance. The bank rate and acceleration requirements for acceptable performance are defined and the sensitivity to a parameter similar to the lateral control departure parameter but involving the RCS jets is evaluated.

  9. A multifaceted comparison of ArcGIS and MapMarker for automated geocoding.

    PubMed

    Kumar, Sanjaya; Liu, Ming; Hwang, Syni-An

    2012-11-01

    Geocoding is increasingly being used for public health surveillance and spatial epidemiology studies. Public health departments in the United States of America (USA) often use this approach to investigate disease outbreaks and clusters or assign health records to appropriate geographic units. We evaluated two commonly used geocoding software packages, ArcGIS and MapMarker, for automated geocoding of a large number of residential addresses from health administrative data in New York State, USA to better understand their features, performance and limitations. The comparison was based on three metrics of evaluation: completeness (or match rate), geocode similarity and positional accuracy. Of the 551,798 input addresses, 318,302 (57.7%) were geocoded by MapMarker and 420,813 (76.3%) by the ArcGIS composite address locator. High similarity between the geocodes assigned by the two methods was found, especially in suburban and urban areas. Among addresses with a distance of greater than 100 m between the geocodes assigned by the two packages, the point assigned by ArcGIS was closer to the associated parcel centroid ("true" location) compared with that assigned by MapMarker. In addition, the composite address locator in ArcGIS allows users to fully utilise available reference data, which consequently results in better geocoding results. However, the positional differences found were minimal, and a large majority of addresses were placed on the same locations by both geocoding packages. Using both methods and combining the results can maximise match rates and save the time needed for manual geocoding.

  10. Population structure and linkage disequilibrium in Lupinus albus L. germplasm and its implication for association mapping.

    PubMed

    Iqbal, Muhammad Javed; Mamidi, Sujan; Ahsan, Rubina; Kianian, Shahryar F; Coyne, Clarice J; Hamama, Anwar A; Narina, Satya S; Bhardwaj, Harbans L

    2012-08-01

    White lupin (Lupinus albus L.) has been around since 300 B.C. and is recognized for its ability to grow on poor soils and application as green manure in addition to seed harvest. The seed has very high levels of protein (33-47 %) and oil (6-13 %). It also has many secondary metabolites that are potentially of nutraceutical value to animals and humans. Despite such a great potential, lupins role in modern agriculture began only in the twentieth century. Although a large collection of Lupinus germplasm accessions is available worldwide, rarely have they been genetically characterized. Additionally, scarce genomic resources in terms of recombinant populations and genome information have been generated for L. albus. With the advancement in association mapping methods, the natural populations have the potential to replace the recombinant populations in gene mapping and marker-trait associations. Therefore, we studied the genetic similarity, population structure and marker-trait association in a USDA germplasm collection for their current and future application in this crop improvement. A total of 122 PI (Plant Inventory) lines were screened with 18 AFLP primer pairs that generated 2,277 fragments. A subset of 892 polymorphic markers with MAF >0.05 (minor allele frequency) were used for association mapping. The cluster analysis failed to group accessions on the basis of their passport information, and a weak structure and low linkage disequilibrium (LD) were observed indicating the usefulness of the collection for association mapping. Moreover, we were also able to identify two markers (a p value of 1.53 × 10(-4) and 2.3 × 10(-4)) that explained 22.69 and 20.5 % of seed weight variation determined using R (LR) (2) . The implications of lack of geographic clustering, population structure, low LD and the ability of AFLP to map seed weight trait using association mapping and the usefulness of the PI collections in breeding programs are discussed.

  11. An integrated map of the genome of the tubercle bacillus, Mycobacterium tuberculosis H37Rv, and comparison with Mycobacterium leprae.

    PubMed Central

    Philipp, W J; Poulet, S; Eiglmeier, K; Pascopella, L; Balasubramanian, V; Heym, B; Bergh, S; Bloom, B R; Jacobs, W R; Cole, S T

    1996-01-01

    An integrated map of the genome of the tubercle bacillus, Mycobacterium tuberculosis, was constructed by using a twin-pronged approach. Pulsed-field gel electrophoretic analysis enabled cleavage sites for Asn I and Dra I to be positioned on the 4.4-Mb circular chromosome, while, in parallel, clones from two cosmid libraries were ordered into contigs by means of fingerprinting and hybridization mapping. The resultant contig map was readily correlated with the physical map of the genome via the landmarked restriction sites. Over 165 genes and markers were localized on the integrated map, thus enabling comparisons with the leprosy bacillus, Mycobacterium leprae, to be undertaken. Mycobacterial genomes appear to have evolved as mosaic structures since extended segments with conserved gene order and organization are interspersed with different flanking regions. Repetitive sequences and insertion elements are highly abundant in M. tuberculosis, but the distribution of IS6110 is apparently nonrandom. Images Fig. 1 Fig. 2 PMID:8610181

  12. Association mapping in sunflower (Helianthus annuus L.) reveals independent control of apical vs. basal branching.

    PubMed

    Nambeesan, Savithri U; Mandel, Jennifer R; Bowers, John E; Marek, Laura F; Ebert, Daniel; Corbi, Jonathan; Rieseberg, Loren H; Knapp, Steven J; Burke, John M

    2015-03-11

    Shoot branching is an important determinant of plant architecture and influences various aspects of growth and development. Selection on branching has also played an important role in the domestication of crop plants, including sunflower (Helianthus annuus L.). Here, we describe an investigation of the genetic basis of variation in branching in sunflower via association mapping in a diverse collection of cultivated sunflower lines. Detailed phenotypic analyses revealed extensive variation in the extent and type of branching within the focal population. After correcting for population structure and kinship, association analyses were performed using a genome-wide collection of SNPs to identify genomic regions that influence a variety of branching-related traits. This work resulted in the identification of multiple previously unidentified genomic regions that contribute to variation in branching. Genomic regions that were associated with apical and mid-apical branching were generally distinct from those associated with basal and mid-basal branching. Homologs of known branching genes from other study systems (i.e., Arabidopsis, rice, pea, and petunia) were also identified from the draft assembly of the sunflower genome and their map positions were compared to those of associations identified herein. Numerous candidate branching genes were found to map in close proximity to significant branching associations. In sunflower, variation in branching is genetically complex and overall branching patterns (i.e., apical vs. basal) were found to be influenced by distinct genomic regions. Moreover, numerous candidate branching genes mapped in close proximity to significant branching associations. Although the sunflower genome exhibits localized islands of elevated linkage disequilibrium (LD), these non-random associations are known to decay rapidly elsewhere. The subset of candidate genes that co-localized with significant associations in regions of low LD represents the most

  13. A Comparison of Spatial Analysis Methods for the Construction of Topographic Maps of Retinal Cell Density

    PubMed Central

    Garza-Gisholt, Eduardo; Hemmi, Jan M.; Hart, Nathan S.; Collin, Shaun P.

    2014-01-01

    Topographic maps that illustrate variations in the density of different neuronal sub-types across the retina are valuable tools for understanding the adaptive significance of retinal specialisations in different species of vertebrates. To date, such maps have been created from raw count data that have been subjected to only limited analysis (linear interpolation) and, in many cases, have been presented as iso-density contour maps with contour lines that have been smoothed ‘by eye’. With the use of stereological approach to count neuronal distribution, a more rigorous approach to analysing the count data is warranted and potentially provides a more accurate representation of the neuron distribution pattern. Moreover, a formal spatial analysis of retinal topography permits a more robust comparison of topographic maps within and between species. In this paper, we present a new R-script for analysing the topography of retinal neurons and compare methods of interpolating and smoothing count data for the construction of topographic maps. We compare four methods for spatial analysis of cell count data: Akima interpolation, thin plate spline interpolation, thin plate spline smoothing and Gaussian kernel smoothing. The use of interpolation ‘respects’ the observed data and simply calculates the intermediate values required to create iso-density contour maps. Interpolation preserves more of the data but, consequently includes outliers, sampling errors and/or other experimental artefacts. In contrast, smoothing the data reduces the ‘noise’ caused by artefacts and permits a clearer representation of the dominant, ‘real’ distribution. This is particularly useful where cell density gradients are shallow and small variations in local density may dramatically influence the perceived spatial pattern of neuronal topography. The thin plate spline and the Gaussian kernel methods both produce similar retinal topography maps but the smoothing parameters used may affect

  14. A comparison of spatial analysis methods for the construction of topographic maps of retinal cell density.

    PubMed

    Garza-Gisholt, Eduardo; Hemmi, Jan M; Hart, Nathan S; Collin, Shaun P

    2014-01-01

    Topographic maps that illustrate variations in the density of different neuronal sub-types across the retina are valuable tools for understanding the adaptive significance of retinal specialisations in different species of vertebrates. To date, such maps have been created from raw count data that have been subjected to only limited analysis (linear interpolation) and, in many cases, have been presented as iso-density contour maps with contour lines that have been smoothed 'by eye'. With the use of stereological approach to count neuronal distribution, a more rigorous approach to analysing the count data is warranted and potentially provides a more accurate representation of the neuron distribution pattern. Moreover, a formal spatial analysis of retinal topography permits a more robust comparison of topographic maps within and between species. In this paper, we present a new R-script for analysing the topography of retinal neurons and compare methods of interpolating and smoothing count data for the construction of topographic maps. We compare four methods for spatial analysis of cell count data: Akima interpolation, thin plate spline interpolation, thin plate spline smoothing and Gaussian kernel smoothing. The use of interpolation 'respects' the observed data and simply calculates the intermediate values required to create iso-density contour maps. Interpolation preserves more of the data but, consequently includes outliers, sampling errors and/or other experimental artefacts. In contrast, smoothing the data reduces the 'noise' caused by artefacts and permits a clearer representation of the dominant, 'real' distribution. This is particularly useful where cell density gradients are shallow and small variations in local density may dramatically influence the perceived spatial pattern of neuronal topography. The thin plate spline and the Gaussian kernel methods both produce similar retinal topography maps but the smoothing parameters used may affect the outcome.

  15. Safety of high volume lipid emulsion infusion: a first approximation of LD50 in rats.

    PubMed

    Hiller, David B; Di Gregorio, Guido; Kelly, Kemba; Ripper, Richard; Edelman, Lucas; Boumendjel, Redouane; Drasner, Kenneth; Weinberg, Guy L

    2010-01-01

    Lipid infusion reverses systemic local anesthetic toxicity. The acceptable upper limit for lipid administration is unknown and has direct bearing on clinical management. We hypothesize that high volumes of lipid could have undesirable effects and sought to identify the dose required to kill 50% of the animals (LD(50)) of large volume lipid administration. Intravenous lines and electrocardiogram electrodes were placed in anesthetized, male Sprague-Dawley rats. Twenty percent lipid emulsion (20, 40, 60, or 80 mL/kg) or saline (60 or 80 mL/kg), were administered over 30 mins; lipid dosing was assigned by the Dixon "up-and-down" method. Rats were recovered and observed for 48 hrs then euthanized for histologic analysis of major organs. Three additional rats were administered 60 mL/kg lipid emulsion and euthanized at 1, 4, and 24 hrs to identify progression of organ damage. The maximum likelihood estimate for LD(50) was 67.72 (SE, 10.69) mL/kg. Triglycerides were elevated immediately after infusion but returned to baseline by 48 hrs when laboratory abnormalities included elevated amylase, aspartate aminotransferase, and serum urea nitrogen for all lipid doses. Histologic diagnosis of myocardium, brain, pancreas, and kidneys was normal at all doses. Microscopic abnormalities in lung and liver were observed at 60 and 80 mL/kg; histopathology in the lung and liver was worse at 1 hr than at 4 and 24 hrs. The LD(50) of rapid, high volume lipid infusion is an order of magnitude greater than doses typically used for lipid rescue in humans and supports the safety of lipid infusion at currently recommended doses for toxin-induced cardiac arrest. Lung and liver histopathology was observed at the highest infused volumes.

  16. Predictive value of hippocampal MR imaging-based high-dimensional mapping in mesial temporal epilepsy: preliminary findings.

    PubMed

    Hogan, R E; Wang, L; Bertrand, M E; Willmore, L J; Bucholz, R D; Nassif, A S; Csernansky, J G

    2006-01-01

    We objectively assessed surface structural changes of the hippocampus in mesial temporal sclerosis (MTS) and assessed the ability of large-deformation high-dimensional mapping (HDM-LD) to demonstrate hippocampal surface symmetry and predict group classification of MTS in right and left MTS groups compared with control subjects. Using eigenvector field analysis of HDM-LD segmentations of the hippocampus, we compared the symmetry of changes in the right and left MTS groups with a group of 15 matched controls. To assess the ability of HDM-LD to predict group classification, eigenvectors were selected by a logistic regression procedure when comparing the MTS group with control subjects. Multivariate analysis of variance on the coefficients from the first 9 eigenvectors accounted for 75% of the total variance between groups. The first 3 eigenvectors showed the largest differences between the control group and each of the MTS groups, but with eigenvector 2 showing the greatest difference in the MTS groups. Reconstruction of the hippocampal deformation vector fields due solely to eigenvector 2 shows symmetrical patterns in the right and left MTS groups. A "leave-one-out" (jackknife) procedure correctly predicted group classification in 14 of 15 (93.3%) left MTS subjects and all 15 right MTS subjects. Analysis of principal dimensions of hippocampal shape change suggests that MTS, after accounting for normal right-left asymmetries, affects the right and left hippocampal surface structure very symmetrically. Preliminary analysis using HDM-LD shows it can predict group classification of MTS and control hippocampi in this well-defined population of patients with MTS and mesial temporal lobe epilepsy (MTLE).

  17. Comorbid LD and ADHD in Childhood: Socioemotional and Behavioural Adjustment and Parents' Positive and Negative Affect

    ERIC Educational Resources Information Center

    Al-Yagon, Michal

    2009-01-01

    The present study examined how vulnerability and protective factors at the individual level (child's disabilities; patterns of attachment), and at the family level (fathers'/mothers' affect), help explain differences in socioemotional and behavioural adjustment among children aged 8-12 years with comorbid learning disability (LD) and attention…

  18. Magnetoencephalographic Mapping of Epileptic Spike Population Using Distributed Source Analysis: Comparison With Intracranial Electroencephalographic Spikes.

    PubMed

    Tanaka, Naoaki; Papadelis, Christos; Tamilia, Eleonora; Madsen, Joseph R; Pearl, Phillip L; Stufflebeam, Steven M

    2018-04-27

    This study evaluates magnetoencephalographic (MEG) spike population as compared with intracranial electroencephalographic (IEEG) spikes using a quantitative method based on distributed source analysis. We retrospectively studied eight patients with medically intractable epilepsy who had an MEG and subsequent IEEG monitoring. Fifty MEG spikes were analyzed in each patient using minimum norm estimate. For individual spikes, each vertex in the source space was considered activated when its source amplitude at the peak latency was higher than a threshold, which was set at 50% of the maximum amplitude over all vertices. We mapped the total count of activation at each vertex. We also analyzed 50 IEEG spikes in the same manner over the intracranial electrodes and created the activation count map. The location of the electrodes was obtained in the MEG source space by coregistering postimplantation computed tomography to MRI. We estimated the MEG- and IEEG-active regions associated with the spike populations using the vertices/electrodes with a count over 25. The activation count maps of MEG spikes demonstrated the localization associated with the spike population by variable count values at each vertex. The MEG-active region overlapped with 65 to 85% of the IEEG-active region in our patient group. Mapping the MEG spike population is valid for demonstrating the trend of spikes clustering in patients with epilepsy. In addition, comparison of MEG and IEEG spikes quantitatively may be informative for understanding their relationship.

  19. Internal Structure and Development of Keyboard Skills in Spanish-Speaking Primary-School Children With and Without LD in Writing.

    PubMed

    Jiménez, Juan E; Marco, Isaac; Suárez, Natalia; González, Desirée

    This study had two purposes: examining the internal structure of the Test Estandarizado para la Evaluación Inicial de la Escritura con Teclado (TEVET; Spanish Keyboarding Writing Test), and analyzing the development of keyboarding skills in Spanish elementary school children with and without learning disabilities (LD) in writing. A group of 1,168 elementary school children carried out the following writing tasks: writing the alphabet in order from memory, allograph selection, word copying, writing dictated words with inconsistent spelling, writing pseudowords from dictation, and independent composition of sentence. For this purpose, exploratory factor analysis for the TEVET was conducted. Principal component analysis with a varimax rotation identified three factors with eigenvalues greater than 1.0. Based on factorial analysis, we analyzed the keyboarding skills across grades in Spanish elementary school children with and without LD (i.e., poor handwriters compared with poor spellers, who in turn were compared with mixed compared with typically achieving writers). The results indicated that poor handwriters did not differ from typically achieving writers in phonological processing, visual-orthographic processing, and sentence production components by keyboarding. The educational implications of the findings are analyzed with regard to acquisition of keyboarding skills in children with and without LD in transcription.

  20. Evidence for large inversion polymorphisms in the human genome from HapMap data

    PubMed Central

    Bansal, Vikas; Bashir, Ali; Bafna, Vineet

    2007-01-01

    Knowledge about structural variation in the human genome has grown tremendously in the past few years. However, inversions represent a class of structural variation that remains difficult to detect. We present a statistical method to identify large inversion polymorphisms using unusual Linkage Disequilibrium (LD) patterns from high-density SNP data. The method is designed to detect chromosomal segments that are inverted (in a majority of the chromosomes) in a population with respect to the reference human genome sequence. We demonstrate the power of this method to detect such inversion polymorphisms through simulations done using the HapMap data. Application of this method to the data from the first phase of the International HapMap project resulted in 176 candidate inversions ranging from 200 kb to several megabases in length. Our predicted inversions include an 800-kb polymorphic inversion at 7p22, a 1.1-Mb inversion at 16p12, and a novel 1.2-Mb inversion on chromosome 10 that is supported by the presence of two discordant fosmids. Analysis of the genomic sequence around inversion breakpoints showed that 11 predicted inversions are flanked by pairs of highly homologous repeats in the inverted orientation. In addition, for three candidate inversions, the inverted orientation is represented in the Celera genome assembly. Although the power of our method to detect inversions is restricted because of inherently noisy LD patterns in population data, inversions predicted by our method represent strong candidates for experimental validation and analysis. PMID:17185644

  1. Effects of a Computerized Working Memory Training Program on Working Memory, Attention, and Academics in Adolescents with Severe LD and Comorbid ADHD: A Randomized Controlled Trial

    ERIC Educational Resources Information Center

    Gray, S. A.; Chaban, P.; Martinussen, R.; Goldberg, R.; Gotlieb, H.; Kronitz, R.; Hockenberry, M.; Tannock, R.

    2012-01-01

    Background: Youths with coexisting learning disabilities (LD) and attention deficit hyperactivity disorder (ADHD) are at risk for poor academic and social outcomes. The underlying cognitive deficits, such as poor working memory (WM), are not well targeted by current treatments for either LD or ADHD. Emerging evidence suggests that WM might be…

  2. A field release of genetically engineered gypsy moth (Lymantria dispar L.) Nuclear Polyhedrosis Virus (LdNPV)

    Treesearch

    Vincent D' Amico; Joseph S. Elkinton; John D. Podgwaite; James M. Slavicek; Michael L. McManus; John P. Burand

    1999-01-01

    The gypsy moth (Lymantria dispar L.) nuclear polyhedrosis virus was genetically engineered for nonpersistence by removal of the gene coding for polyhedrin production and stabilized using a coocclusion process. A β-galactosidase marker gene was inserted into the genetically engineered virus (LdGEV) so that infected larvae could be tested for...

  3. Engaging Adolescents with LD in Higher Order Thinking about History Concepts Using Integrated Content Enhancement Routines

    ERIC Educational Resources Information Center

    Bulgren, Janis; Deshler, Donald D.; Lenz, B. Keith

    2007-01-01

    The understanding and use of historical concepts specified in national history standards pose many challenges to students. These challenges include both the acquisition of content knowledge and the use of that knowledge in ways that require higher order thinking. All students, including adolescents with learning disabilities (LD), are expected to…

  4. Measuring and partitioning the high-order linkage disequilibrium by multiple order Markov chains.

    PubMed

    Kim, Yunjung; Feng, Sheng; Zeng, Zhao-Bang

    2008-05-01

    A map of the background levels of disequilibrium between nearby markers can be useful for association mapping studies. In order to assess the background levels of linkage disequilibrium (LD), multilocus LD measures are more advantageous than pairwise LD measures because the combined analysis of pairwise LD measures is not adequate to detect simultaneous allele associations among multiple markers. Various multilocus LD measures based on haplotypes have been proposed. However, most of these measures provide a single index of association among multiple markers and does not reveal the complex patterns and different levels of LD structure. In this paper, we employ non-homogeneous, multiple order Markov Chain models as a statistical framework to measure and partition the LD among multiple markers into components due to different orders of marker associations. Using a sliding window of multiple markers on phased haplotype data, we compute corresponding likelihoods for different Markov Chain (MC) orders in each window. The log-likelihood difference between the lowest MC order model (MC0) and the highest MC order model in each window is used as a measure of the total LD or the overall deviation from the gametic equilibrium for the window. Then, we partition the total LD into lower order disequilibria and estimate the effects from two-, three-, and higher order disequilibria. The relationship between different orders of LD and the log-likelihood difference involving two different orders of MC models are explored. By applying our method to the phased haplotype data in the ENCODE regions of the HapMap project, we are able to identify high/low multilocus LD regions. Our results reveal that the most LD in the HapMap data is attributed to the LD between adjacent pairs of markers across the whole region. LD between adjacent pairs of markers appears to be more significant in high multilocus LD regions than in low multilocus LD regions. We also find that as the multilocus total LD

  5. Host Range Factor 1 from Lymantria dispar Nucleopolyhedrovirus (NPV) Is an Essential Viral Factor Required for Productive Infection of NPVs in IPLB-Ld652Y Cells Derived from L. dispar

    PubMed Central

    Ishikawa, Hiroki; Ikeda, Motoko; Felipe Alves, Cristiano A.; Thiem, Suzanne M.; Kobayashi, Michihiro

    2004-01-01

    Host range factor 1 (HRF-1) of Lymantria dispar multinucleocapsid nucleopolyhedrovirus promotes Autographa californica MNPV replication in nonpermissive Ld652Y cells derived from L. dispar. Here we demonstrate that restricted Hyphantria cunea NPV replication in Ld652Y cells was not due to apoptosis but was likely due to global protein synthesis arrest that could be restored by HRF-1. Our data also showed that HRF-1 promoted the production of progeny virions for two other baculoviruses, Bombyx mori NPV and Spodoptera exigua MNPV, whose replication in Ld652Y cells is limited to replication of viral DNA without successful production of infectious progeny virions. Thus, HRF-1 is an essential viral factor required for productive infection of NPVs in Ld652Y cells. PMID:15507661

  6. Host range factor 1 from Lymantria dispar Nucleopolyhedrovirus (NPV) is an essential viral factor required for productive infection of NPVs in IPLB-Ld652Y cells derived from L. dispar.

    PubMed

    Ishikawa, Hiroki; Ikeda, Motoko; Alves, Cristiano A Felipe; Thiem, Suzanne M; Kobayashi, Michihiro

    2004-11-01

    Host range factor 1 (HRF-1) of Lymantria dispar multinucleocapsid nucleopolyhedrovirus promotes Autographa californica MNPV replication in nonpermissive Ld652Y cells derived from L. dispar. Here we demonstrate that restricted Hyphantria cunea NPV replication in Ld652Y cells was not due to apoptosis but was likely due to global protein synthesis arrest that could be restored by HRF-1. Our data also showed that HRF-1 promoted the production of progeny virions for two other baculoviruses, Bombyx mori NPV and Spodoptera exigua MNPV, whose replication in Ld652Y cells is limited to replication of viral DNA without successful production of infectious progeny virions. Thus, HRF-1 is an essential viral factor required for productive infection of NPVs in Ld652Y cells.

  7. Virtual Connections, Personal Resources, Loneliness, and Academic Self-Efficacy among College Students with and without LD

    ERIC Educational Resources Information Center

    Sharabi, Adi; Sade, Sarit; Margalit, Malka

    2016-01-01

    The goals of the study were first to compare the social and academic well-being (loneliness and academic self-efficacy (ASE) among college students with and without learning disabilities (LD), as well as three personal strengths (hope, optimism and sense of coherence (SOC). The second goal was to identify the predicting factors to their loneliness…

  8. The Effects of a Growth Mindset Intervention on the Beliefs about Intelligence, Effort Beliefs, Achievement Goal Orientations, and Academic Self-Efficacy of LD Students with Reading Difficulties

    ERIC Educational Resources Information Center

    Baldridge, Mary Caufield

    2010-01-01

    The overall purpose of this study was to examine the effects of a "growth mindset" intervention on the beliefs about intelligence, effort beliefs, achievement goals, and academic self-efficacy of learning disabled (LD) students with reading difficulties. The treatment group consisted of 12 high school LD students with reading difficulties. This…

  9. Customised City Maps in Mobile Applications for Senior Citizens.

    PubMed

    Reins, Frank; Berker, Frank; Heck, Helmut

    2017-01-01

    Map services should be used in mobile applications for senior citizens. Do the commonly used map services meet the needs of elderly people? - Exemplarily, the contrast ratios of common maps in comparison to an optimized custom rendered map are examined in the paper.

  10. Linkage disequilibrium between STRPs and SNPs across the human genome.

    PubMed

    Payseur, Bret A; Place, Michael; Weber, James L

    2008-05-01

    Patterns of linkage disequilibrium (LD) reveal the action of evolutionary processes and provide crucial information for association mapping of disease genes. Although recent studies have described the landscape of LD among single nucleotide polymorphisms (SNPs) from across the human genome, associations involving other classes of molecular variation remain poorly understood. In addition to recombination and population history, mutation rate and process are expected to shape LD. To test this idea, we measured associations between short-tandem-repeat polymorphisms (STRPs), which can mutate rapidly and recurrently, and SNPs in 721 regions across the human genome. We directly compared STRP-SNP LD with SNP-SNP LD from the same genomic regions in the human HapMap populations. The intensity of STRP-SNP LD, measured by the average of D', was reduced, consistent with the action of recurrent mutation. Nevertheless, a higher fraction of STRP-SNP pairs than SNP-SNP pairs showed significant LD, on both short (up to 50 kb) and long (cM) scales. These results reveal the substantial effects of mutational processes on LD at STRPs and provide important measures of the potential of STRPs for association mapping of disease genes.

  11. 20180311 - Variability of LD50 Values from Rat Oral Acute Toxicity Studies: Implications for Alternative Model Development (SOT)

    EPA Science Inventory

    Alternative models developed for estimating acute systemic toxicity are generally evaluated using in vivo LD50 values. However, in vivo acute systemic toxicity studies can produce variable results, even when conducted according to accepted test guidelines. This variability can ma...

  12. PXK locus in systemic lupus erythematosus: fine mapping and functional analysis reveals novel susceptibility gene ABHD6.

    PubMed

    Oparina, Nina Y; Delgado-Vega, Angelica M; Martinez-Bueno, Manuel; Magro-Checa, César; Fernández, Concepción; Castro, Rafaela Ortega; Pons-Estel, Bernardo A; D'Alfonso, Sandra; Sebastiani, Gian Domenico; Witte, Torsten; Lauwerys, Bernard R; Endreffy, Emoke; Kovács, László; Escudero, Alejandro; López-Pedrera, Chary; Vasconcelos, Carlos; da Silva, Berta Martins; Frostegård, Johan; Truedsson, Lennart; Martin, Javier; Raya, Enrique; Ortego-Centeno, Norberto; de Los Angeles Aguirre, Maria; de Ramón Garrido, Enrique; Palma, María-Jesús Castillo; Alarcon-Riquelme, Marta E; Kozyrev, Sergey V

    2015-03-01

    To perform fine mapping of the PXK locus associated with systemic lupus erythematosus (SLE) and study functional effects that lead to susceptibility to the disease. Linkage disequilibrium (LD) mapping was conducted by using 1251 SNPs (single nucleotide polymorphism) covering a 862 kb genomic region on 3p14.3 comprising the PXK locus in 1467 SLE patients and 2377 controls of European origin. Tag SNPs and genotypes imputed with IMPUTE2 were tested for association by using SNPTEST and PLINK. The expression QTLs data included three independent datasets for lymphoblastoid cells of European donors: HapMap3, MuTHER and the cross-platform eQTL catalogue. Correlation analysis of eQTLs was performed using Vassarstats. Alternative splicing for the PXK gene was analysed on mRNA from PBMCs. Fine mapping revealed long-range LD (>200 kb) extended over the ABHD6, RPP14, PXK, and PDHB genes on 3p14.3. The highly correlated variants tagged an SLE-associated haplotype that was less frequent in the patients compared with the controls (OR=0.89, p=0.00684). A robust correlation between the association with SLE and enhanced expression of ABHD6 gene was revealed, while neither expression, nor splicing alterations associated with SLE susceptibility were detected for PXK. The SNP allele frequencies as well as eQTL pattern analysed in the CEU and CHB HapMap3 populations indicate that the SLE association and the effect on ABHD6 expression are specific to Europeans. These results confirm the genetic association of the locus 3p14.3 with SLE in Europeans and point to the ABHD6 and not PXK, as the major susceptibility gene in the region. We suggest a pathogenic mechanism mediated by the upregulation of ABHD6 in individuals carrying the SLE-risk variants. 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.

  13. HAPRAP: a haplotype-based iterative method for statistical fine mapping using GWAS summary statistics.

    PubMed

    Zheng, Jie; Rodriguez, Santiago; Laurin, Charles; Baird, Denis; Trela-Larsen, Lea; Erzurumluoglu, Mesut A; Zheng, Yi; White, Jon; Giambartolomei, Claudia; Zabaneh, Delilah; Morris, Richard; Kumari, Meena; Casas, Juan P; Hingorani, Aroon D; Evans, David M; Gaunt, Tom R; Day, Ian N M

    2017-01-01

    Fine mapping is a widely used approach for identifying the causal variant(s) at disease-associated loci. Standard methods (e.g. multiple regression) require individual level genotypes. Recent fine mapping methods using summary-level data require the pairwise correlation coefficients ([Formula: see text]) of the variants. However, haplotypes rather than pairwise [Formula: see text], are the true biological representation of linkage disequilibrium (LD) among multiple loci. In this article, we present an empirical iterative method, HAPlotype Regional Association analysis Program (HAPRAP), that enables fine mapping using summary statistics and haplotype information from an individual-level reference panel. Simulations with individual-level genotypes show that the results of HAPRAP and multiple regression are highly consistent. In simulation with summary-level data, we demonstrate that HAPRAP is less sensitive to poor LD estimates. In a parametric simulation using Genetic Investigation of ANthropometric Traits height data, HAPRAP performs well with a small training sample size (N < 2000) while other methods become suboptimal. Moreover, HAPRAP's performance is not affected substantially by single nucleotide polymorphisms (SNPs) with low minor allele frequencies. We applied the method to existing quantitative trait and binary outcome meta-analyses (human height, QTc interval and gallbladder disease); all previous reported association signals were replicated and two additional variants were independently associated with human height. Due to the growing availability of summary level data, the value of HAPRAP is likely to increase markedly for future analyses (e.g. functional prediction and identification of instruments for Mendelian randomization). The HAPRAP package and documentation are available at http://apps.biocompute.org.uk/haprap/ CONTACT: : jie.zheng@bristol.ac.uk or tom.gaunt@bristol.ac.ukSupplementary information: Supplementary data are available at

  14. Helping Students with Disabilities Transition to College: 21 Tips for Students with LD and/or ADD/ADHD

    ERIC Educational Resources Information Center

    Connor, David J.

    2012-01-01

    Making the transition from high school to college poses challenges for most students. Moving from a secure, regulated world of secondary education into an unfamiliar environment requiring greater independence can be a destabilizing experience. For students with learning disabilities (LD) and/or Attention Deficit Disorder (ADD), managing this…

  15. A 1J LD pumped Nd:YAG pulsed laser system

    NASA Astrophysics Data System (ADS)

    Yi, Xue-bin; Wang, Bin; Yang, Feng; Li, Jing; Liu, Ya-Ping; Li, Hui-Jun; Wang, Yu; Chen, Ren

    2017-11-01

    A 1J LD pumped Nd;YAG pulsed laser was designed. The laser uses an oscillation and two-staged amplification structure, and applies diode bar integrated array as side-pump. The TEC temperature control device combing liquid cooling system is organized to control the temperature of the laser system. This study also analyzed the theoretical threshold of working material, the effect of thermal lens and the basic principle of laser amplification. The results showed that the laser system can achieve 1J, 25Hz pulse laser output, and the laser pulse can be output at two width: 6-7ns and 10ns, respectively, and the original beam angle is 1.2mrad. The laser system is characterized by small size, light weight, as well as good stability, which make it being applied in varied fields such as photovoltaic radar platform and etc

  16. Comparisons of Self-Determination among Students with Autism, Intellectual Disability, and Learning Disabilities: A Multivariate Analysis

    ERIC Educational Resources Information Center

    Chou, Yu-Chi; Wehmeyer, Michael L.; Palmer, Susan B.; Lee, Jaehoon

    2017-01-01

    This study examined differences in self-determination among students with autism spectrum disorders (ASD), students with intellectual disability (ID), and students with learning disabilities (LD). A total of 222 participants with an equal size group for each of the three disability categories were selected to participate in the comparison of total…

  17. LD-cladding-pumped 50 pm linewidth Tm 3+ -doped silica fiber laser.

    PubMed

    Yunjun, Zhang; Baoquan, Yao; Youlun, Ju; Hui, Zhou; Yuezhu, Wang

    2008-05-26

    We report on a Tm(3+)-doped fiber laser source operating at 1936.4 nm with a very narrow linewidth (50 pm) laser output. Up to 2.4 W cw laser power was obtained from an 82 cm long Tm(3+)-doped multimode-core fiber cladding pumped by a 792 nm laser diode (LD). The fiber laser cavity included a high-reflective dichroic and a low-reflective FBG output coupler. The multimode fiber Bragg grating (FBG) transmission spectrum and output laser spectrum were measured. By adjusting the distance between the dichroic and the Tm(3+)-doped fiber end, the multipeak laser spectrum changed to a single-peak laser spectrum.

  18. Effects of a computerized working memory training program on working memory, attention, and academics in adolescents with severe LD and comorbid ADHD: a randomized controlled trial.

    PubMed

    Gray, S A; Chaban, P; Martinussen, R; Goldberg, R; Gotlieb, H; Kronitz, R; Hockenberry, M; Tannock, R

    2012-12-01

    Youths with coexisting learning disabilities (LD) and attention deficit hyperactivity disorder (ADHD) are at risk for poor academic and social outcomes. The underlying cognitive deficits, such as poor working memory (WM), are not well targeted by current treatments for either LD or ADHD. Emerging evidence suggests that WM might be improved by intensive and adaptive computerized training, but it remains unclear whether this intervention would be effective for adolescents with severe LD and comorbid ADHD. A total of sixty 12- to 17-year olds with LD/ADHD (52 male, 8 female, IQ > 80) were randomized to one of two computerized intervention programs: working memory training (Cogmed RM) or math training (Academy of Math) and evaluated before and 3 weeks after completion. The criterion measures of WM included auditory-verbal and visual-spatial tasks. Near and far transfer measures included indices of cognitive and behavioral attention and academic achievement. Adolescents in the WM training group showed greater improvements in a subset of WM criterion measures compared with those in the math-training group, but no training effects were observed on the near or far measures. Those who showed the most improvement on the WM training tasks at school were rated as less inattentive/hyperactive at home by parents. Results suggest that WM training may enhance some aspects of WM in youths with LD/ADHD, but further development of the training program is required to promote transfer effects to other domains of function. © 2012 The Authors. Journal of Child Psychology and Psychiatry © 2012 Association for Child and Adolescent Mental Health.

  19. Comparison of lithological mapping results from airborne hyperspectral VNIR-SWIR, LWIR and combined data

    NASA Astrophysics Data System (ADS)

    Feng, Jilu; Rogge, Derek; Rivard, Benoit

    2018-02-01

    differences are observed for quartz-rich sediments, with the SWIR overestimating the distribution of these rocks whereas the LWIR provided more consistent results compared with existing maps. Both SWIR and LWIR imagery were impacted by the pervasive lichen coatings on the mafic rocks (basalts and gabbros), although the SWIR provided better results than the LWIR. Limitations observed for the independent data sets were removed using the combined spectral data resulting in all geologically meaningful units mapped correctly in comparison with existing geological maps.

  20. Teaching Business Law to Non-Law Students, Culturally and Linguistically Diverse ("CaLD") Students, and Large Classes

    ERIC Educational Resources Information Center

    Kariyawasam, Kanchana; Low, Hang Yen

    2014-01-01

    This paper is largely based on the experience of teaching law to students with non-legal background in business schools, with a focus on internationalisation and the large class lecture format. Business schools often consist of large classes which include a significant proportion of Culturally and Linguistically Diverse (CaLD) students. Teaching a…

  1. Hemispherical map for the human brain cortex

    NASA Astrophysics Data System (ADS)

    Tosun, Duygu; Prince, Jerry L.

    2001-07-01

    Understanding the function of the human brain cortex is a primary goal in human brain mapping. Methods to unfold and flatten the cortical surface for visualization and measurement have been described in previous literature; but comparison across multiple subjects is still difficult because of the lack of a standard mapping technique. We describe a new approach that maps each hemisphere of the cortex to a portion of a sphere in a standard way, making comparison of anatomy and function across different subjects possible. Starting with a three-dimensional magnetic resonance image of the brain, the cortex is segmented and represented as a triangle mesh. Defining a cut around the corpus collosum identifies the left and right hemispheres. Together, the two hemispheres are mapped to the complex plane using a conformal mapping technique. A Mobius transformation, which is conformal, is used to transform the points on the complex plane so that a projective transformation maps each brain hemisphere onto a spherical segment comprising a sphere with a cap removed. We determined the best size of the spherical cap by minimizing the relative area distortion between hemispherical maps and original cortical surfaces. The relative area distortion between the hemispherical maps and the original cortical surfaces for fifteen human brains is analyzed.

  2. Substrate-Driven Mapping of the Degradome by Comparison of Sequence Logos

    PubMed Central

    Fuchs, Julian E.; von Grafenstein, Susanne; Huber, Roland G.; Kramer, Christian; Liedl, Klaus R.

    2013-01-01

    Sequence logos are frequently used to illustrate substrate preferences and specificity of proteases. Here, we employed the compiled substrates of the MEROPS database to introduce a novel metric for comparison of protease substrate preferences. The constructed similarity matrix of 62 proteases can be used to intuitively visualize similarities in protease substrate readout via principal component analysis and construction of protease specificity trees. Since our new metric is solely based on substrate data, we can engraft the protease tree including proteolytic enzymes of different evolutionary origin. Thereby, our analyses confirm pronounced overlaps in substrate recognition not only between proteases closely related on sequence basis but also between proteolytic enzymes of different evolutionary origin and catalytic type. To illustrate the applicability of our approach we analyze the distribution of targets of small molecules from the ChEMBL database in our substrate-based protease specificity trees. We observe a striking clustering of annotated targets in tree branches even though these grouped targets do not necessarily share similarity on protein sequence level. This highlights the value and applicability of knowledge acquired from peptide substrates in drug design of small molecules, e.g., for the prediction of off-target effects or drug repurposing. Consequently, our similarity metric allows to map the degradome and its associated drug target network via comparison of known substrate peptides. The substrate-driven view of protein-protein interfaces is not limited to the field of proteases but can be applied to any target class where a sufficient amount of known substrate data is available. PMID:24244149

  3. Optimization of media components for laccase production by litter dwelling fungal isolate Fusarium incarnatum LD-3.

    PubMed

    Chhaya, Urvish; Gupte, Akshaya

    2010-02-01

    Laccase production by solid state fermentation (SSF) using an indigenously isolated litter dwelling fungus Fusarium incarnatum LD-3 was optimized. Fourteen medium components were screened by the initial screening method of Plackett-Burman. Each of the components was screened on the basis of 'p' (probability value) which was above 95% confidence level. Ortho-dianisidine, thiamine HCl and CuSO(4) . 5 H(2)O were identified as significant components for laccase production. The Central Composite Design response surface methodology was then applied to further optimize the laccase production. The optimal concentration of these three medium components for higher laccase production were (g/l): CuSO(4) . 5 H(2)O, 0.01; thiamine HCl, 0.0136 and ortho-dianisidine, 0.388 mM served as an inducer. Wheat straw, 5.0 g was used as a solid substrate. Using this statistical optimization method the laccase production was found to increase from 40 U/g to 650 U/g of wheat straw, which was sixteen times higher than non optimized medium. This is the first report on statistical optimization of laccase production from Fusarium incarnatum LD-3.

  4. Vanadium removal from LD converter slag using bacteria and fungi.

    PubMed

    Mirazimi, S M J; Abbasalipour, Z; Rashchi, F

    2015-04-15

    Removal of vanadium from Linz-Donawits (LD) converter slag was investigated by means of three different species of microbial systems: Acidithiobacillus thiooxidans (autotrophic bacteria), Pseudomonas putida (heterotrophic bacteria) and Aspergillus niger (fungi). The bioleaching process was carried out in both one-step and two-step process and the leaching efficiencies in both cases were compared. Formation of inorganic and organic acids during the leaching process caused mobilization of vanadium. In order to reduce toxic effects of the metal species on the above mentioned microorganisms, a prolonged adaptation process was performed. Both bacteria, A. thiooxidans and P. putida were able to remove more than 90% of vanadium at slag concentrations of 1-5 g L(-1) after 15 days. Also, the maximum achievable vanadium removal in the fungal system was approximately 92% at a slag concentration of 1 g L(-1) after 22 days. Copyright © 2015 Elsevier Ltd. All rights reserved.

  5. Studying Disability and Disability Studies: Shifting Paradigms of LD -- A Synthesis of Responses to Reid and Valle

    ERIC Educational Resources Information Center

    Connor, David J.

    2005-01-01

    In this article, I discuss the 11 diverse responses to Reid and Valle's work on the discursive practice of learning disabilities (LD), implications for instruction, and parent-school relations. I highlight key ideas from each article and then focus on three common areas of interest shared by most respondents: the unacceptable status quo of…

  6. Genome contact map explorer: a platform for the comparison, interactive visualization and analysis of genome contact maps

    PubMed Central

    Kumar, Rajendra; Sobhy, Haitham

    2017-01-01

    Abstract Hi-C experiments generate data in form of large genome contact maps (Hi-C maps). These show that chromosomes are arranged in a hierarchy of three-dimensional compartments. But to understand how these compartments form and by how much they affect genetic processes such as gene regulation, biologists and bioinformaticians need efficient tools to visualize and analyze Hi-C data. However, this is technically challenging because these maps are big. In this paper, we remedied this problem, partly by implementing an efficient file format and developed the genome contact map explorer platform. Apart from tools to process Hi-C data, such as normalization methods and a programmable interface, we made a graphical interface that let users browse, scroll and zoom Hi-C maps to visually search for patterns in the Hi-C data. In the software, it is also possible to browse several maps simultaneously and plot related genomic data. The software is openly accessible to the scientific community. PMID:28973466

  7. Comparison of glomerular activity patterns by fMRI and wide-field calcium imaging: implications for principles underlying odor mapping

    PubMed Central

    Sanganahalli, Basavaraju G.; Rebello, Michelle R.; Herman, Peter; Papademetris, Xenophon; Shepherd, Gordon M.; Verhagen, Justus V.; Hyder, Fahmeed

    2015-01-01

    Functional imaging signals arise from distinct metabolic and hemodynamic events at the neuropil, but how these processes are influenced by pre- and post-synaptic activities need to be understood for quantitative interpretation of stimulus-evoked mapping data. The olfactory bulb (OB) glomeruli, spherical neuropil regions with well-defined neuronal circuitry, can provide insights into this issue. Optical calcium-sensitive fluorescent dye imaging (OICa2+) reflects dynamics of pre-synaptic input to glomeruli, whereas high-resolution functional magnetic resonance imaging (fMRI) using deoxyhemoglobin contrast reveals neuropil function within the glomerular layer where both pre- and post-synaptic activities contribute. We imaged odor-specific activity patterns of the dorsal OB in the same anesthetized rats with fMRI and OICa2+ and then co-registered the respective maps to compare patterns in the same space. Maps by each modality were very reproducible as trial-to-trial patterns for a given odor, overlapping by ~80%. Maps evoked by ethyl butyrate and methyl valerate for a given modality overlapped by ~80%, suggesting activation of similar dorsal glomerular networks by these odors. Comparison of maps generated by both methods for a given odor showed ~70% overlap, indicating similar odor-specific maps by each method. These results suggest that odor-specific glomerular patterns by high-resolution fMRI primarily tracks pre-synaptic input to the OB. Thus combining OICa2+ and fMRI lays the framework for studies of OB processing over a range of spatiotemporal scales, where OICa2+ can feature the fast dynamics of dorsal glomerular clusters and fMRI can map the entire glomerular sheet in the OB. PMID:26631819

  8. Mapping of a disease susceptibility locus in chromosome 6p in Japanese patients with ulcerative colitis.

    PubMed

    Nomura, E; Kinouchi, Y; Negoro, K; Kojima, Y; Oomori, S; Sugimura, M; Hiroki, M; Takagi, S; Aihara, H; Takahashi, S; Hiwatashi, N; Shimosegawa, T

    2004-09-01

    Ulcerative colitis (UC) is a multifactorial disorder with both genetic and environmental factors. HLA-B*52 and DRB1*1502 are reported to be strongly associated with UC in Japan. However, the actual susceptible gene has not been identified yet. In this study, to map precisely the susceptible locus for UC, we performed association mapping in the chromosome 6p using 24 microsatellite markers distributed over 16 Mb. A total of 183 patients with UC and 186 healthy controls (HC) were included in this study. In all, 15 markers around the human leukocyte antigen (HLA) region showed statistical significance in the genotypic differentiation test concerned with the allelic distribution between the UC and HC. Especially, the markers between the centromeric region of HLA class I and the telomeric region of class III showed remarkably low P-values and the allele239 of C2-4-4 in class I marker showed the strongest association (Pc=2.9 x 10(-9): OR=3.74, 95% CI=2.50-5.60). Furthermore, we found strong linkage disequilibrium (LD) between the allele239 of C2-4-4 and HLA-B*52 in haplotype analysis. These results provide evidence that, in Japanese, important determinants of disease susceptibility to UC may exist in HLA, especially between the centromeric region of class I and the telomeric region of class III, under the strong LD with HLA-B*52.

  9. High-resolution melt analysis to identify and map sequence-tagged site anchor points onto linkage maps: a white lupin (Lupinus albus) map as an exemplar.

    PubMed

    Croxford, Adam E; Rogers, Tom; Caligari, Peter D S; Wilkinson, Michael J

    2008-01-01

    * The provision of sequence-tagged site (STS) anchor points allows meaningful comparisons between mapping studies but can be a time-consuming process for nonmodel species or orphan crops. * Here, the first use of high-resolution melt analysis (HRM) to generate STS markers for use in linkage mapping is described. This strategy is rapid and low-cost, and circumvents the need for labelled primers or amplicon fractionation. * Using white lupin (Lupinus albus, x = 25) as a case study, HRM analysis was applied to identify 91 polymorphic markers from expressed sequence tag (EST)-derived and genomic libraries. Of these, 77 generated STS anchor points in the first fully resolved linkage map of the species. The map also included 230 amplified fragment length polymorphisms (AFLP) loci, spanned 1916 cM (84.2% coverage) and divided into the expected 25 linkage groups. * Quantitative trait loci (QTL) analyses performed on the population revealed genomic regions associated with several traits, including the agronomically important time to flowering (tf), alkaloid synthesis and stem height (Ph). Use of HRM-STS markers also allowed us to make direct comparisons between our map and that of the related crop, Lupinus angustifolius, based on the conversion of RFLP, microsatellite and single nucleotide polymorphism (SNP) markers into HRM markers.

  10. Land cover change map comparisons using open source web mapping technologies

    Treesearch

    Erik Lindblom; Ian Housman; Tony Guay; Mark Finco; Kevin Megown

    2015-01-01

    The USDA Forest Service is evaluating the status of current landscape change maps and assessing gaps in their information content. These activities have been occurring under the auspices of the Landscape Change Monitoring System (LCMS) project, which is a joint effort between USFS Research, USFS Remote Sensing Applications Center (RSAC), USGS Earth Resources...

  11. The economic viability of breast reconstruction in the UK: comparison of a single surgeon's experience of implant; LD; TRAM and DIEP based reconstructions in 274 patients.

    PubMed

    Atherton, D D; Hills, A J; Moradi, P; Muirhead, N; Wood, S H

    2011-06-01

    A retrospective audit was performed of patients undergoing breast reconstruction under the care of the senior author from 2000 to 2007. We documented reconstruction type, length of stay and total number of revisions. Income to the trust based on the 2008/9 HRG codes along with any "top ups" was also recorded. This was compared to calculations of cost to the trust of performing each reconstruction. 274 patients had 278 primary reconstructions and a further 366 revisions. Only patients with a minimum one-year's follow-up were included (mean 3 years). This included 68 DIEPs'; 39 TRAMs'; 98 LDs'; and 73 implant reconstructions. The median length of stay for implant based reconstruction was 4 days; 9 for LD flaps; 11 for TRAMs' and 8 for DIEPs'. This was significantly shorter for the implant group compared to other reconstructions (P<0.001). The mean number of surgical revisions was 1.5 for implant reconstructions; 1.6 for LDs; 0.9 for TRAMs' and 0.8 for DIEPs'. There were significantly more revisions of implant reconstructions than DIEPs (P=0.037) and significantly more revisions of LDs compared to TRAM and DIEPs' (P=0.012 and 0.0023). In our study, the cost of an LD, TRAM or DIEP reconstruction including both primary surgery and any revisions was similar, and while at an average of three years, the implant reconstruction remains cheaper, that patient will still require more revisions, and if followed up enough will lose this small financial benefit. Furthermore, the difference is small (£8034 for implants vs. £10910 for DIEPs), and it could be argued this is justified by the increased patient satisfaction and cosmetic outcome. Finally we highlight several areas of financial inequality, including insufficient remuneration for providing individual operations, the lack of payment for performing more than one procedure at the same time and lack of payment for bilateral procedures. Copyright © 2010 British Association of Plastic, Reconstructive and Aesthetic Surgeons

  12. Comparison of Spatiotemporal Mapping Techniques for Enormous Etl and Exploitation Patterns

    NASA Astrophysics Data System (ADS)

    Deiotte, R.; La Valley, R.

    2017-10-01

    The need to extract, transform, and exploit enormous volumes of spatiotemporal data has exploded with the rise of social media, advanced military sensors, wearables, automotive tracking, etc. However, current methods of spatiotemporal encoding and exploitation simultaneously limit the use of that information and increase computing complexity. Current spatiotemporal encoding methods from Niemeyer and Usher rely on a Z-order space filling curve, a relative of Peano's 1890 space filling curve, for spatial hashing and interleaving temporal hashes to generate a spatiotemporal encoding. However, there exist other space-filling curves, and that provide different manifold coverings that could promote better hashing techniques for spatial data and have the potential to map spatiotemporal data without interleaving. The concatenation of Niemeyer's and Usher's techniques provide a highly efficient space-time index. However, other methods have advantages and disadvantages regarding computational cost, efficiency, and utility. This paper explores the several methods using a range of sizes of data sets from 1K to 10M observations and provides a comparison of the methods.

  13. Calibration of the DRASTIC ground water vulnerability mapping method

    USGS Publications Warehouse

    Rupert, M.G.

    2001-01-01

    Ground water vulnerability maps developed using the DRASTIC method have been produced in many parts of the world. Comparisons of those maps with actual ground water quality data have shown that the DRASTIC method is typically a poor predictor of ground water contamination. This study significantly improved the effectiveness of a modified DRASTIC ground water vulnerability map by calibrating the point rating schemes to actual ground water quality data by using nonparametric statistical techniques and a geographic information system. Calibration was performed by comparing data on nitrite plus nitrate as nitrogen (NO2 + NO3-N) concentrations in ground water to land-use, soils, and depth to first-encountered ground water data. These comparisons showed clear statistical differences between NO2 + NO3-N concentrations and the various categories. Ground water probability point ratings for NO2 + NO3-N contamination were developed from the results of these comparisons, and a probability map was produced. This ground water probability map was then correlated with an independent set of NO2 + NO3-N data to demonstrate its effectiveness in predicting elevated NO2 + NO3-N concentrations in ground water. This correlation demonstrated that the probability map was effective, but a vulnerability map produced with the uncalibrated DRASTIC method in the same area and using the same data layers was not effective. Considerable time and expense have been outlaid to develop ground water vulnerability maps with the DRASTIC method. This study demonstrates a cost-effective method to improve and verify the effectiveness of ground water vulnerability maps.

  14. Leishmania donovani tyrosyl-tRNA synthetase structure in complex with a tyrosyl adenylate analog and comparisons with human and protozoan counterparts.

    PubMed

    Barros-Álvarez, Ximena; Kerchner, Keshia M; Koh, Cho Yeow; Turley, Stewart; Pardon, Els; Steyaert, Jan; Ranade, Ranae M; Gillespie, J Robert; Zhang, Zhongsheng; Verlinde, Christophe L M J; Fan, Erkang; Buckner, Frederick S; Hol, Wim G J

    2017-07-01

    The crystal structure of Leishmania donovani tyrosyl-tRNA synthetase (LdTyrRS) in complex with a nanobody and the tyrosyl adenylate analog TyrSA was determined at 2.75 Å resolution. Nanobodies are the variable domains of camelid heavy chain-only antibodies. The nanobody makes numerous crystal contacts and in addition reduces the flexibility of a loop of LdTyrRS. TyrSA is engaged in many interactions with active site residues occupying the tyrosine and adenine binding pockets. The LdTyrRS polypeptide chain consists of two pseudo-monomers, each consisting of two domains. Comparing the two independent chains in the asymmetric unit reveals that the two pseudo-monomers of LdTyrRS can bend with respect to each other essentially as rigid bodies. This flexibility might be useful in the positioning of tRNA for catalysis since both pseudo-monomers in the LdTyrRS chain are needed for charging tRNA Tyr . An "extra pocket" (EP) appears to be present near the adenine binding region of LdTyrRS. Since this pocket is absent in the two human homologous enzymes, the EP provides interesting opportunities for obtaining selective drugs for treating infections caused by L. donovani, a unicellular parasite causing visceral leishmaniasis, or kala azar, which claims 20,000 to 30,000 deaths per year. Sequence and structural comparisons indicate that the EP is a characteristic which also occurs in the active site of several other important pathogenic protozoa. Therefore, the structure of LdTyrRS could inspire the design of compounds useful for treating several different parasitic diseases. Copyright © 2017 Elsevier B.V. and Société Française de Biochimie et Biologie Moléculaire (SFBBM). All rights reserved.

  15. Intellectual, Achievement, and Mental Health Evaluation of At-Risk Adolescents: Assessing Comorbidity of ADHD, LD, and Conduct Problems.

    ERIC Educational Resources Information Center

    Bullock, Wesley A.; And Others

    A multidimensional clinical assessment project was conducted on an at-risk adolescent population (n=78) in a public school setting. The focus of the project was on the identification of specific learning disabilities (LD) and attention deficit hyperactivity disorder (ADHD) as they relate to mental health problems and scholastic difficulties.…

  16. New vegetation type map of India prepared using satellite remote sensing: Comparison with global vegetation maps and utilities

    NASA Astrophysics Data System (ADS)

    Roy, P. S.; Behera, M. D.; Murthy, M. S. R.; Roy, Arijit; Singh, Sarnam; Kushwaha, S. P. S.; Jha, C. S.; Sudhakar, S.; Joshi, P. K.; Reddy, Ch. Sudhakar; Gupta, Stutee; Pujar, Girish; Dutt, C. B. S.; Srivastava, V. K.; Porwal, M. C.; Tripathi, Poonam; Singh, J. S.; Chitale, Vishwas; Skidmore, A. K.; Rajshekhar, G.; Kushwaha, Deepak; Karnatak, Harish; Saran, Sameer; Giriraj, A.; Padalia, Hitendra; Kale, Manish; Nandy, Subrato; Jeganathan, C.; Singh, C. P.; Biradar, C. M.; Pattanaik, Chiranjibi; Singh, D. K.; Devagiri, G. M.; Talukdar, Gautam; Panigrahy, Rabindra K.; Singh, Harnam; Sharma, J. R.; Haridasan, K.; Trivedi, Shivam; Singh, K. P.; Kannan, L.; Daniel, M.; Misra, M. K.; Niphadkar, Madhura; Nagabhatla, Nidhi; Prasad, Nupoor; Tripathi, O. P.; Prasad, P. Rama Chandra; Dash, Pushpa; Qureshi, Qamer; Tripathi, S. K.; Ramesh, B. R.; Gowda, Balakrishnan; Tomar, Sanjay; Romshoo, Shakil; Giriraj, Shilpa; Ravan, Shirish A.; Behera, Soumit Kumar; Paul, Subrato; Das, Ashesh Kumar; Ranganath, B. K.; Singh, T. P.; Sahu, T. R.; Shankar, Uma; Menon, A. R. R.; Srivastava, Gaurav; Neeti; Sharma, Subrat; Mohapatra, U. B.; Peddi, Ashok; Rashid, Humayun; Salroo, Irfan; Krishna, P. Hari; Hajra, P. K.; Vergheese, A. O.; Matin, Shafique; Chaudhary, Swapnil A.; Ghosh, Sonali; Lakshmi, Udaya; Rawat, Deepshikha; Ambastha, Kalpana; Malik, Akhtar H.; Devi, B. S. S.; Gowda, Balakrishna; Sharma, K. C.; Mukharjee, Prashant; Sharma, Ajay; Davidar, Priya; Raju, R. R. Venkata; Katewa, S. S.; Kant, Shashi; Raju, Vatsavaya S.; Uniyal, B. P.; Debnath, Bijan; Rout, D. K.; Thapa, Rajesh; Joseph, Shijo; Chhetri, Pradeep; Ramachandran, Reshma M.

    2015-07-01

    A seamless vegetation type map of India (scale 1: 50,000) prepared using medium-resolution IRS LISS-III images is presented. The map was created using an on-screen visual interpretation technique and has an accuracy of 90%, as assessed using 15,565 ground control points. India has hitherto been using potential vegetation/forest type map prepared by Champion and Seth in 1968. We characterized and mapped further the vegetation type distribution in the country in terms of occurrence and distribution, area occupancy, percentage of protected area (PA) covered by each vegetation type, range of elevation, mean annual temperature and precipitation over the past 100 years. A remote sensing-amenable hierarchical classification scheme that accommodates natural and semi-natural systems was conceptualized, and the natural vegetation was classified into forests, scrub/shrub lands and grasslands on the basis of extent of vegetation cover. We discuss the distribution and potential utility of the vegetation type map in a broad range of ecological, climatic and conservation applications from global, national and local perspectives. We used 15,565 ground control points to assess the accuracy of products available globally (i.e., GlobCover, Holdridge's life zone map and potential natural vegetation (PNV) maps). Hence we recommend that the map prepared herein be used widely. This vegetation type map is the most comprehensive one developed for India so far. It was prepared using 23.5 m seasonal satellite remote sensing data, field samples and information relating to the biogeography, climate and soil. The digital map is now available through a web portal (http://bis.iirs.gov.in).

  17. Assessing Geographic Knowledge with Sketch Maps.

    ERIC Educational Resources Information Center

    Wise, Naomi; Kon, Jane Heckley

    1990-01-01

    Maintains that comparison of students' sketch maps at the beginning and end of the year can provide information on how student's representations of the world changes. Describes a study from the California International Studies Project (CISP) that provides an easy method for sorting and summarizing sketch map data. Illustrates the method with…

  18. Making the nursing curriculum more inclusive for students with specific learning difficulties (SpLD): embedding specialist study skills into a core module.

    PubMed

    Wray, Jane; Aspland, Jo; Taghzouit, Jayne; Pace, Kerry

    2013-06-01

    Wray et al. (2012) found that providing specialist 'add on' study skills sessions to students with SpLD increased the likelihood of progression and earlier identification. However, 48% of students identified as 'at risk' of having a SpLD did not pursue further assessment/support, which is of concern. OBJECTIVES/DESIGN/PARTICIPANTS/SETTINGS: The study aimed to explore the impact of embedding nine study skills sessions designed for students with SpLD into the mainstream curriculum on pre-registration nursing students in one HEI in the north of England. Two cohorts (September 2009 (n=257) and February 2010 (n=127)) took part; a total of 300 students completed a student feedback questionnaire (201 from September 2009, 99 from February 2010 (response rates of 87% and 80%)). The study used an outcome evaluation approach (Watson et al., 2008) to explore the impact of the sessions using a range of measures: (i) a student feedback questionnaire, (ii) length of time from registration to first contact with Disability Services, and (iii) progression data. Overall, the sessions were received very positively, especially those on essay writing, reflection and learning techniques. Students in the study cohorts made contact with Disability Services 4-6 weeks earlier than other cohorts; referrals were also higher. Equally, students with SpLD with access to study skills had higher rates of progression (e.g. 87% in 2009) than in years with no sessions (e.g. 62% in 2008); progression rates were comparable to their non-disabled peers. Mainstreaming what had previously been a reasonable adjustment made time- and resource-savings for the institution. Such approaches to embedding are important in encouraging and retaining talented and able students. Copyright © 2012 Elsevier Ltd. All rights reserved.

  19. Leveling the Digital Playing Field: Assessing the Learning Technology Needs of College-Bound Students with LD and/or ADHD

    ERIC Educational Resources Information Center

    Parker, David R.; Banerjee, Manju

    2007-01-01

    As increasing numbers of students with learning disabilities (LD) or attention-deficit/hyperactivity disorder (ADHD) transition to postsecondary education, they encounter a heightened need for proficiency with a wide range of learning technologies. Whereas the Individuals With Disabilities Education Improvement Act of 2004 (IDEIA) requires…

  20. A first insight into population structure and linkage disequilibrium in the US peanut minicore collection

    USDA-ARS?s Scientific Manuscript database

    Knowledge of genetic diversity, population structure, and degree of linkage disequilibrium (LD) in target association mapping populations is of great importance and is a prerequisite for LD-based mapping. In the present study, 96 genotypes comprising 92 accessions of the US peanut minicore collectio...

  1. A Comparison of How Gifted/LD and Average/LD Boys Cope with School Frustration.

    ERIC Educational Resources Information Center

    Coleman, Mary Ruth

    1992-01-01

    Gifted learning-disabled and average learning-disabled middle school boys (n=42) in grades 6-9 were compared on ways they cope with difficult school situations. Although no group differences were found on the Coping Resources Inventory, significant differences were found in the actual strategies the groups reported using, with gifted students…

  2. Impact of L/D on 90 Degree Sharp-Edge Orifice Flow with Manifold Passage Cross Flow (Preprint)

    DTIC Science & Technology

    2007-04-30

    that are observed by measurement as the flow transitions from non-cavitation to cavitation (turbulent flow), supercavitation , and finally separation in...include inception of cavitation, supercavitation , and separation. 15. SUBJECT TERMS 16. SECURITY CLASSIFICATION OF: 17. LIMITATION OF...cavitation to cavitation (turbulent flow), supercavitation , and finally separation in sharp-edge 90 degree orifices. This study includes orifice L/D from

  3. Mediating Factors of a School-Based Multi-Component Smoking Prevention Intervention: The LdP Cluster Randomized Controlled Trial

    ERIC Educational Resources Information Center

    Carreras, G.; Bosi, S.; Angelini, P.; Gorini, G.

    2016-01-01

    The aim of this study was to investigate factors mediating the effects of Luoghi di Prevenzione (LdP) smoking prevention intervention based on social competence and social influence approaches, and characterized by peer-led school-based interventions, out-of-school workshops, school lessons, and by enforcing the school anti-smoking policy.…

  4. Teachers' Pedagogical Competence in Adapting Curricula for Children with Learning Difficulties (LD) in Primary Schools in Ghana

    ERIC Educational Resources Information Center

    Alhassan, Abdul-Razak Kuyini; Abosi, Chigorom Okechukwu

    2017-01-01

    Ghana education service (GES) has not achieved much in curriculum adaption to address the needs of children with disability. The aim of this study is to investigate teachers' pedagogical competence (TPC) in curriculum adaptation to include children with LD in primary schools. Mixed-Method Design Strategy involving 387 sampled teachers was used.…

  5. N-glycan structures of human transferrin produced by Lymantria dispar (gypsy moth)cells using the LdMNPV expression system

    Treesearch

    One Choi; Noboru Tomiya; Jung H. Kim; James M. Slavicek; Michael J. Betenbaugh; Yuan C. Lee

    2003-01-01

    N-glycan structures of recombinant human serum transferrin (hTf) expressed by Lymantria dispar (gypsy moth) 652Y cells were determined. The gene encoding hTf was incorporated into a Lymantria dispar nucleopolyhedrovirus (LdMNPV) under the control of the polyhedrin promoter. This virus was then...

  6. Mucuna pruriens in Parkinson Disease: A Kinetic-Dynamic Comparison With Levodopa Standard Formulations.

    PubMed

    Contin, Manuela; Lopane, Giovanna; Passini, Andrea; Poli, Ferruccio; Iannello, Carmelina; Guarino, Maria

    2015-01-01

    We compared levodopa (LD) kinetic-dynamic profile of a dose of LD/aromatic amino acid decarboxylase peripheral inhibitors versus a nominally equivalent dose of a commercial Mucuna pruriens (Mucuna) seeds extract in 2 patients with Parkinson disease chronically taking LD standard combined with self-prescribed Mucuna. Patients were challenged with a fasting morning dose of 100 mg LD/25 mg carbidopa (patient 1) or benserazide (patient 2) versus 100 mg LD from Mucuna capsules in 2 different sessions, after a 12-hour standard LD formulations' washout. They underwent kinetic-dynamic LD monitoring based on LD dose intake and simultaneous serial assessments of plasma drug concentrations and motor test performances. Quantitative analysis of LD in Mucuna capsules was also performed. Levodopa bioavailability was markedly lower after Mucuna administration compared with LD standard formulations: in patient 1, peak plasma LD concentration (Cmax) decreased from 2.0 to 1.0 mg/L and the area under the plasma concentration time curve from 137 to 33.6 mg/L per minute; in patient 2, Cmax was 0.7 mg/L after LD/benserazide and nearly undetectable after Mucuna. In patient 1, impaired LD bioavailability from Mucuna resulted in reduced duration and overall extent of drug response compared with LD/carbidopa. In patient 2, no significant subacute LD motor response was observed in either condition. Quantitative analysis of Mucuna formulation confirmed the 100 mg LD content for the utilized capsules. Our results show an impaired LD bioavailability from Mucuna preparation, as expected by the lacking aromatic amino acid decarboxylase inhibitors coadministration, which might explain the suggested lower dyskinetic potential of Mucuna compared with standard LD formulations.

  7. Comparison of RAPD Linkage Maps Constructed For a Single Longleaf Pine From Both Haploid and Diploid Mapping Populations

    Treesearch

    Thomas L. Kubisiak; C.Dana Nelson; W.L. Name; M. Stine

    1996-01-01

    Considerable concern has been voiced regarding the reproducibility/transferability of RAPD markers across different genetic backgrounds in genetic mapping experiments. Therefore, separate gametic subsets (mapping populations) were used to construct individual random amplified polymorphic DNA (RAPD) linkage maps for a single longleaf pine (Pinus palustris...

  8. Maps of averaged spectral deviations from soil lines and their comparison with traditional soil maps

    NASA Astrophysics Data System (ADS)

    Rukhovich, D. I.; Rukhovich, A. D.; Rukhovich, D. D.; Simakova, M. S.; Kulyanitsa, A. L.; Bryzzhev, A. V.; Koroleva, P. V.

    2016-07-01

    The analysis of 34 cloudless fragments of Landsat 5, 7, and 8 images (1985-2014) on the territory of Plavsk, Arsen'evsk, and Chern districts of Tula oblast has been performed. It is shown that bare soil surface on the RED-NIR plots derived from the images cannot be described in the form of a sector of spectral plane as it can be done for the NDVI values. The notion of spectral neighborhood of soil line (SNSL) is suggested. It is defined as the sum of points of the RED-NIR spectral space, which are characterized by spectral characteristics of the bare soil applied for constructing soil lines. The way of the SNSL separation along the line of the lowest concentration density of points on the RED-NIR spectral space is suggested. This line separates bare soil surface from vegetating plants. The SNSL has been applied to construct soil line (SL) for each of the 34 images and to delineate bare soil surface on them. Distances from the points with averaged RED-NIR coordinates to the SL have been calculated using the method of moving window. These distances can be referred to as averaged spectral deviations (ASDs). The calculations have been performed strictly for the SNSL areas. As a result, 34 maps of ASDs have been created. These maps contain ASD values for 6036 points of a grid used in the study. Then, the integral map of normalized ASD values has been built with due account for the number of points participating in the calculation (i.e., lying in the SNSL) within the moving window. The integral map of ASD values has been compared with four traditional soil maps on the studied territory. It is shown that this integral map can be interpreted in terms of soil taxa: the areas of seven soil subtypes (soddy moderately podzolic, soddy slightly podzolic, light gray forest. gray forest, dark gray forest, podzolized chernozems, and leached chernozems) belonging to three soil types (soddy-podzolic, gray forest, and chernozemic soils) can be delineated on it.

  9. Electrocorticographic language mapping in children by high-gamma synchronization during spontaneous conversation: comparison with conventional electrical cortical stimulation.

    PubMed

    Arya, Ravindra; Wilson, J Adam; Vannest, Jennifer; Byars, Anna W; Greiner, Hansel M; Buroker, Jason; Fujiwara, Hisako; Mangano, Francesco T; Holland, Katherine D; Horn, Paul S; Crone, Nathan E; Rose, Douglas F

    2015-02-01

    This study describes development of a novel language mapping approach using high-γ modulation in electrocorticograph (ECoG) during spontaneous conversation, and its comparison with electrical cortical stimulation (ECS) in childhood-onset drug-resistant epilepsy. Patients undergoing invasive pre-surgical monitoring and able to converse with the investigator were eligible. ECoG signals and synchronized audio were acquired during quiet baseline and during natural conversation between investigator and the patient. Using Signal Modeling for Real-time Identification and Event Detection (SIGFRIED) procedure, a statistical model for baseline high-γ (70-116 Hz) power, and a single score for each channel representing the probability that the power features in the experimental signal window belonged to the baseline model, were calculated. Electrodes with significant high-γ responses (HGS) were plotted on the 3D cortical model. Sensitivity, specificity, positive and negative predictive values (PPV, NPV), and classification accuracy were calculated compared to ECS. Seven patients were included (4 males, mean age 10.28 ± 4.07 years). Significant high-γ responses were observed in classic language areas in the left hemisphere plus in some homologous right hemispheric areas. Compared with clinical standard ECS mapping, the sensitivity and specificity of HGS mapping was 88.89% and 63.64%, respectively, and PPV and NPV were 35.29% and 96.25%, with an overall accuracy of 68.24%. HGS mapping was able to correctly determine all ECS+ sites in 6 of 7 patients and all false-sites (ECS+, HGS- for visual naming, n = 3) were attributable to only 1 patient. This study supports the feasibility of language mapping with ECoG HGS during spontaneous conversation, and its accuracy compared to traditional ECS. Given long-standing concerns about ecological validity of ECS mapping of cued language tasks, and difficulties encountered with its use in children, ECoG mapping of spontaneous language

  10. Hydrogeological features and environmental impacts of geothermal waters in the Yıldız River Basin (Sivas, Turkey).

    PubMed

    Keskin, Tülay Ekemen; Kaçaroğlu, Fikret

    2015-02-01

    The study area, located in the Yıldız River Basin (Sivas), has eight geothermal waters, which are used for balneotherapy. The aim of this study was to investigate the natural and/or anthropogenic water pollution in terms of drinking and irrigation water in the Sıcak Çermik, Uyuz Çermiği, and Hamzaşeyh Çermiği geothermal areas. Na+, Cl-, SO4(-2), B, Mn, Fe, As, and Se concentrations of the geothermal waters generally exceed the upper limits stated in the Turkish Standards for Water Intended for Human Consumption and World Health Organization regulations. Based on the irrigation water classification by the U.S. Salinity Laboratory Diagram, it is concluded that these waters may have hazardous levels of salinity and sodium when used as irrigation water. Wastewater from these health and tourism centers is discharged into the Yıldız River and to agricultural land. This procedure causes increase in the concentrations of major and minor elements and negatively affects the river water quality.

  11. Comparison of in situ stratospheric ozone measurements obtained during the MAP/GLOBUS 1983 campaign

    NASA Technical Reports Server (NTRS)

    Aimedieu, P.; Matthews, W. A.; Attmannspacher, W.; Hartmannsgruber, R.; Cisneros, J.; Komhyr, W.; Robbins, D. E.

    1987-01-01

    Data from five types of in situ ozone sensors flown aboard ballons during the MAP/GLOBUS 1983 campaign were found to agree to within 5 percent uncertainty throughout the middle atmosphere. A description of the individual techniques and the error budget is given in addition to explanations for the discrepancies found at higher and lower altitudes. In comparison to UV photometry values, results from two electrochemical techniques were found to be greater in the lower atmosphere and to be lower in the upper atmosphere. In general, olefin chemiluminescence results were within 8 percent of the UV photometry results. Ozone column contents measured by the indigo colorization technique for two altitude regions of about 6 km height were greater than measurements from other techniques by 52 and 17 percent, respectively.

  12. Comparison of in situ stratospheric ozone measurements obtained during the MAP/GLOBUS 1983 campaign

    NASA Astrophysics Data System (ADS)

    Aimedieu, P.; Matthews, W. A.; Attmannspacher, W.; Hartmannsgruber, R.; Cisneros, J.; Komhyr, W.; Robbins, D. E.

    1987-05-01

    Data from five types of in situ ozone sensors flown aboard ballons during the MAP/GLOBUS 1983 campaign were found to agree to within 5 percent uncertainty throughout the middle atmosphere. A description of the individual techniques and the error budget is given in addition to explanations for the discrepancies found at higher and lower altitudes. In comparison to UV photometry values, results from two electrochemical techniques were found to be greater in the lower atmosphere and to be lower in the upper atmosphere. In general, olefin chemiluminescence results were within 8 percent of the UV photometry results. Ozone column contents measured by the indigo colorization technique for two altitude regions of about 6 km height were greater than measurements from other techniques by 52 and 17 percent, respectively.

  13. 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.

  14. Geologic Interpretation of Data Sets Collected by Planetary Analog Geology Traverses and by Standard Geologic Field Mapping. Part 1; A Comparison Study

    NASA Technical Reports Server (NTRS)

    Eppler, Dean B.; Bleacher, Jacob F.; Evans, Cynthia A.; Feng, Wanda; Gruener, John; Hurwitz, Debra M.; Skinner, J. A., Jr.; Whitson, Peggy; Janoiko, Barbara

    2013-01-01

    Geologic maps integrate the distributions, contacts, and compositions of rock and sediment bodies as a means to interpret local to regional formative histories. Applying terrestrial mapping techniques to other planets is challenging because data is collected primarily by orbiting instruments, with infrequent, spatiallylimited in situ human and robotic exploration. Although geologic maps developed using remote data sets and limited "Apollo-style" field access likely contain inaccuracies, the magnitude, type, and occurrence of these are only marginally understood. This project evaluates the interpretative and cartographic accuracy of both field- and remote-based mapping approaches by comparing two 1:24,000 scale geologic maps of the San Francisco Volcanic Field (SFVF), north-central Arizona. The first map is based on traditional field mapping techniques, while the second is based on remote data sets, augmented with limited field observations collected during NASA Desert Research & Technology Studies (RATS) 2010 exercises. The RATS mission used Apollo-style methods not only for pre-mission traverse planning but also to conduct geologic sampling as part of science operation tests. Cross-comparison demonstrates that the Apollo-style map identifies many of the same rock units and determines a similar broad history as the field-based map. However, field mapping techniques allow markedly improved discrimination of map units, particularly unconsolidated surficial deposits, and recognize a more complex eruptive history than was possible using Apollo-style data. Further, the distribution of unconsolidated surface units was more obvious in the remote sensing data to the field team after conducting the fieldwork. The study raises questions about the most effective approach to balancing mission costs with the rate of knowledge capture, suggesting that there is an inflection point in the "knowledge capture curve" beyond which additional resource investment yields progressively

  15. Phenotypic mapping of metabolic profiles using self-organizing maps of high-dimensional mass spectrometry data.

    PubMed

    Goodwin, Cody R; Sherrod, Stacy D; Marasco, Christina C; Bachmann, Brian O; Schramm-Sapyta, Nicole; Wikswo, John P; McLean, John A

    2014-07-01

    A metabolic system is composed of inherently interconnected metabolic precursors, intermediates, and products. The analysis of untargeted metabolomics data has conventionally been performed through the use of comparative statistics or multivariate statistical analysis-based approaches; however, each falls short in representing the related nature of metabolic perturbations. Herein, we describe a complementary method for the analysis of large metabolite inventories using a data-driven approach based upon a self-organizing map algorithm. This workflow allows for the unsupervised clustering, and subsequent prioritization of, correlated features through Gestalt comparisons of metabolic heat maps. We describe this methodology in detail, including a comparison to conventional metabolomics approaches, and demonstrate the application of this method to the analysis of the metabolic repercussions of prolonged cocaine exposure in rat sera profiles.

  16. Iconicity as structure mapping

    PubMed Central

    Emmorey, Karen

    2014-01-01

    Linguistic and psycholinguistic evidence is presented to support the use of structure-mapping theory as a framework for understanding effects of iconicity on sign language grammar and processing. The existence of structured mappings between phonological form and semantic mental representations has been shown to explain the nature of metaphor and pronominal anaphora in sign languages. With respect to processing, it is argued that psycholinguistic effects of iconicity may only be observed when the task specifically taps into such structured mappings. In addition, language acquisition effects may only be observed when the relevant cognitive abilities are in place (e.g. the ability to make structural comparisons) and when the relevant conceptual knowledge has been acquired (i.e. information key to processing the iconic mapping). Finally, it is suggested that iconicity is better understood as a structured mapping between two mental representations than as a link between linguistic form and human experience. PMID:25092669

  17. Internal Structure and Development of Keyboard Skills in Spanish-Speaking Primary-School Children with and without LD in Writing

    ERIC Educational Resources Information Center

    Jiménez, Juan E.; Marco, Isaac; Suárez, Natalia; González, Desirée

    2017-01-01

    This study had two purposes: examining the internal structure of the "Test Estandarizado para la Evaluación Inicial de la Escritura con Teclado" (TEVET; Spanish Keyboarding Writing Test), and analyzing the development of keyboarding skills in Spanish elementary school children with and without learning disabilities (LD) in writing. A…

  18. Language mapping with navigated transcranial magnetic stimulation in pediatric and adult patients undergoing epilepsy surgery: Comparison with extraoperative direct cortical stimulation.

    PubMed

    Lehtinen, Henri; Mäkelä, Jyrki P; Mäkelä, Teemu; Lioumis, Pantelis; Metsähonkala, Liisa; Hokkanen, Laura; Wilenius, Juha; Gaily, Eija

    2018-06-01

    Navigated transcranial magnetic stimulation (nTMS) is becoming increasingly popular in noninvasive preoperative language mapping, as its results correlate well enough with those obtained by direct cortical stimulation (DCS) during awake surgery in adult patients with tumor. Reports in the context of epilepsy surgery or extraoperative DCS in adults are, however, sparse, and validation of nTMS with DCS in children is lacking. Furthermore, little is known about the risk of inducing epileptic seizures with nTMS in pediatric epilepsy patients. We provide the largest validation study to date in an epilepsy surgery population. We compared language mapping with nTMS and extraoperative DCS in 20 epilepsy surgery patients (age range 9-32 years; 14 children and adolescents). In comparison with DCS, sensitivity of nTMS was 68%, specificity 76%, positive predictive value 27%, and negative predictive value 95%. Age, location of ictal-onset zone near or within DCS-mapped language areas or severity of cognitive deficits had no significant effect on these values. None of our patients had seizures during nTMS. Our study suggests that nTMS language mapping is clinically useful and safe in epilepsy surgery patients, including school-aged children and patients with extensive cognitive dysfunction. Similar to in tumor surgery, mapping results in the frontal region are most reliable. False negative findings may be slightly more likely in epilepsy than in tumor surgery patients. Mapping results should always be verified by other methods in individual patients.

  19. Mapping microscopic order in plant and mammalian cells and tissues: novel differential polarization attachment for new generation confocal microscopes (DP-LSM)

    NASA Astrophysics Data System (ADS)

    Steinbach, G.; Pawlak, K.; Pomozi, I.; Tóth, E. A.; Molnár, A.; Matkó, J.; Garab, G.

    2014-03-01

    Elucidation of the molecular architecture of complex, highly organized molecular macro-assemblies is an important, basic task for biology. Differential polarization (DP) measurements, such as linear (LD) and circular dichroism (CD) or the anisotropy of the fluorescence emission (r), which can be carried out in a dichrograph or spectrofluorimeter, respectively, carry unique, spatially averaged information about the molecular organization of the sample. For inhomogeneous samples—e.g. cells and tissues—measurements on macroscopic scale are not satisfactory, and in some cases not feasible, thus microscopic techniques must be applied. The microscopic DP-imaging technique, when based on confocal laser scanning microscope (LSM), allows the pixel by pixel mapping of anisotropy of a sample in 2D and 3D. The first DP-LSM configuration, which, in fluorescence mode, allowed confocal imaging of different DP quantities in real-time, without interfering with the ‘conventional’ imaging, was built on a Zeiss LSM410. It was demonstrated to be capable of determining non-confocally the linear birefringence (LB) or LD of a sample and, confocally, its FDLD (fluorescence detected LD), the degree of polarization (P) and the anisotropy of the fluorescence emission (r), following polarized and non-polarized excitation, respectively (Steinbach et al 2009 Acta Histochem.111 316-25). This DP-LSM configuration, however, cannot simply be adopted to new generation microscopes with considerably more compact structures. As shown here, for an Olympus FV500, we designed an easy-to-install DP attachment to determine LB, LD, FDLD and r, in new-generation confocal microscopes, which, in principle, can be complemented with a P-imaging unit, but specifically to the brand and type of LSM.

  20. Acute and subacute oral toxicity of polychlorinated diphenyl sulfides in mice: determining LD50 and assessing the status of hepatic oxidative stress.

    PubMed

    Zhang, Xuesheng; Liu, Fu; Chen, Binyuan; Li, Ying; Wang, Zunyao

    2012-07-01

    Polychlorinated diphenyl sulfides (PCDPSs), a series of dioxin-like compounds, have been detected in various environmental samples. However, information on the toxicity of these compounds is limited. In the present study, the toxic effects of PCDPSs were assessed after acute and subacute exposure in mice. Relationships between acute toxicity, number, and position of substituted Cl atoms were assessed. In the acute study, 11 types of PCDPSs were administered to female Kunming mice by gavage, and median lethal doses (LD50s) were determined by the Karber method. Results indicated that the LD50s of lower substituted PCDPSs were smaller than higher substituted PCDPSs. Substituted positions also influenced the LD50 of PCDPSs. Terminal necropsy showed increased relative liver weights and decreased relative kidney weights. Histological examination of livers demonstrated swollen cells, inflammation, vacuolization, and necrosis. In the 28-d subacute exposure tests, 11 types of PCDPSs were dissolved in corn oil and administered to mice at doses of 1, 10, and 100 mg/kg. Superoxide dismutase (SOD) activity and malondialdehyde (MDA) levels in mouse liver were determined after the exposure period. Results suggested that lower substituted PCDPSs decreased SOD activity in the high-dose groups compared with controls, and MDA level in the 100-mg/kg dose group was significantly increased. In addition, acute toxicity of PCDPSs partly corresponded to the hepatic oxidative damage observed. Copyright © 2012 SETAC.

  1. A comparison of top-down and bottom-up approaches to benthic habitat mapping to inform offshore wind energy development

    NASA Astrophysics Data System (ADS)

    LaFrance, Monique; King, John W.; Oakley, Bryan A.; Pratt, Sheldon

    2014-07-01

    Recent interest in offshore renewable energy within the United States has amplified the need for marine spatial planning to direct management strategies and address competing user demands. To assist this effort in Rhode Island, benthic habitat classification maps were developed for two sites in offshore waters being considered for wind turbine installation. Maps characterizing and representing the distribution and extent of benthic habitats are valuable tools for improving understanding of ecosystem patterns and processes, and promoting scientifically-sound management decisions. This project presented the opportunity to conduct a comparison of the methodologies and resulting map outputs of two classification approaches, “top-down” and “bottom-up” in the two study areas. This comparison was undertaken to improve understanding of mapping methodologies and their applicability, including the bottom-up approach in offshore environments where data density tends to be lower, as well as to provide case studies for scientists and managers to consider for their own areas of interest. Such case studies can offer guidance for future work for assessing methodologies and translating them to other areas. The traditional top-down mapping approach identifies biological community patterns based on communities occurring within geologically defined habitat map units, under the concept that geologic environments contain distinct biological assemblages. Alternatively, the bottom-up approach aims to establish habitat map units centered on biological similarity and then uses statistics to identify relationships with associated environmental parameters and determine habitat boundaries. When applied to the two study areas, both mapping approaches produced habitat classes with distinct macrofaunal assemblages and each established statistically strong and significant biotic-abiotic relationships with geologic features, sediment characteristics, water depth, and/or habitat

  2. 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

  3. Comparison of Object-Based Image Analysis Approaches to Mapping New Buildings in Accra, Ghana Using Multi-Temporal QuickBird Satellite Imagery

    PubMed Central

    Tsai, Yu Hsin; Stow, Douglas; Weeks, John

    2013-01-01

    The goal of this study was to map and quantify the number of newly constructed buildings in Accra, Ghana between 2002 and 2010 based on high spatial resolution satellite image data. Two semi-automated feature detection approaches for detecting and mapping newly constructed buildings based on QuickBird very high spatial resolution satellite imagery were analyzed: (1) post-classification comparison; and (2) bi-temporal layerstack classification. Feature Analyst software based on a spatial contextual classifier and ENVI Feature Extraction that uses a true object-based image analysis approach of image segmentation and segment classification were evaluated. Final map products representing new building objects were compared and assessed for accuracy using two object-based accuracy measures, completeness and correctness. The bi-temporal layerstack method generated more accurate results compared to the post-classification comparison method due to less confusion with background objects. The spectral/spatial contextual approach (Feature Analyst) outperformed the true object-based feature delineation approach (ENVI Feature Extraction) due to its ability to more reliably delineate individual buildings of various sizes. Semi-automated, object-based detection followed by manual editing appears to be a reliable and efficient approach for detecting and enumerating new building objects. A bivariate regression analysis was performed using neighborhood-level estimates of new building density regressed on a census-derived measure of socio-economic status, yielding an inverse relationship with R2 = 0.31 (n = 27; p = 0.00). The primary utility of the new building delineation results is to support spatial analyses of land cover and land use and demographic change. PMID:24415810

  4. Comparison of Different EO Sensors for Mapping Tree Species- A Case Study in Southwest Germany

    NASA Astrophysics Data System (ADS)

    Enßle, Fabian; Kattenborn, Teja; Koch, Barbara

    2014-11-01

    The variety of different remote sensing sensors and thus the types of data specifications which are available is increasing continuously. Especially the differences in geometric, radiometric and temporal resolutions of different platforms affect their ability for the mapping of forests. These differences hinder the comparability and application of uniform methods of different remotely sensed data across the same region of interest. The quality and quantity of retrieved forest parameters is directly dependent on the data source, and therefore the objective of this project is to analyse the relationship between the data source and its derived parameters. A comparison of different optical EO-data (e.g. spatial resolution and spectral resolution of specific bands) will help to define the optimum data sets to produce a reproducible method to provide additional inputs to the Dragon cooperative project, specifically to method development for woody biomass estimation and biodiversity assessment services. This poster presents the first results on tree species mapping in a mixed temperate forest by satellite imagery taken from four different sensors. Tree species addressed in this pilot study are Scots pine (Pinus sylvestris), sessile oak (Quercus petraea) and red oak (Quercus rubra). The spatial resolution varies from 2m to 30m and the spectral resolutions range from 8bands up to 155bands.

  5. Comparison of Different EO Sensors for Mapping Tree Species- A Case Study in Southwest Germany

    NASA Astrophysics Data System (ADS)

    Enβle, Fabian; Kattenborn, Teja; Koch, Barbara

    2014-11-01

    The variety of different remote sensing sensors and thus the types of data specifications which are available is increasing continuously. Especially the differences in geometric, radiometric and temporal resolutions of different platforms affect their ability for the mapping of forests. These differences hinder the comparability and application of uniform methods of different remotely sensed data across the same region of interest. The quality and quantity of retrieved forest parameters is directly dependent on the data source, and therefore the objective of this project is to analyse the relationship between the data source and its derived parameters. A comparison of different optical EO-data (e.g. spatial resolution and spectral resolution of specific bands) will help to define the optimum data sets to produce a reproducible method to provide additional inputs to the Dragon cooperative project, specifically to method development for woody biomass estimation and biodiversity assessment services. This poster presents the first results on tree species mapping in a mixed temperate forest by satellite imagery taken from four different sensors. Tree species addressed in this pilot study are: Scots pine (Pinus sylvestris), sessile oak (Quercus petraea) and red oak (Quercus rubra). The spatial resolution varies from 2m to 30m and the spectral resolutions range from 8bands up to 155bands.

  6. Cultivation, LD(50) determination and experimental model of Streptococcus suis serotype 2 strain HA9801.

    PubMed

    Zhao, Zhanzhong; Wang, Jian; Liu, Peihong; Zhang, Suhua; Gong, Jianpei; Huang, Xiqin; Li, Bin; Xue, Feiqun

    2009-04-01

    The effects of nutritional components and submerged culture conditions on colony-forming unit (CFU) counts by Streptococcus suis serotype 2 strain HA9801 in flask culture was investigated, and the optimal medium and cultivation conditions was confirmed by using a 50l bioreactor. The LD(50) values of HA9801 in pigs before and after fermentation were 1.8 x 10(7)CFU, which indicated that the virulence of HA9801 was very stable in the fermentation process. In addition, an experimental model that closely mimics naturally occurring disease in conventional pigs was established.

  7. rasbhari: Optimizing Spaced Seeds for Database Searching, Read Mapping and Alignment-Free Sequence Comparison.

    PubMed

    Hahn, Lars; Leimeister, Chris-André; Ounit, Rachid; Lonardi, Stefano; Morgenstern, Burkhard

    2016-10-01

    Many algorithms for sequence analysis rely on word matching or word statistics. Often, these approaches can be improved if binary patterns representing match and don't-care positions are used as a filter, such that only those positions of words are considered that correspond to the match positions of the patterns. The performance of these approaches, however, depends on the underlying patterns. Herein, we show that the overlap complexity of a pattern set that was introduced by Ilie and Ilie is closely related to the variance of the number of matches between two evolutionarily related sequences with respect to this pattern set. We propose a modified hill-climbing algorithm to optimize pattern sets for database searching, read mapping and alignment-free sequence comparison of nucleic-acid sequences; our implementation of this algorithm is called rasbhari. Depending on the application at hand, rasbhari can either minimize the overlap complexity of pattern sets, maximize their sensitivity in database searching or minimize the variance of the number of pattern-based matches in alignment-free sequence comparison. We show that, for database searching, rasbhari generates pattern sets with slightly higher sensitivity than existing approaches. In our Spaced Words approach to alignment-free sequence comparison, pattern sets calculated with rasbhari led to more accurate estimates of phylogenetic distances than the randomly generated pattern sets that we previously used. Finally, we used rasbhari to generate patterns for short read classification with CLARK-S. Here too, the sensitivity of the results could be improved, compared to the default patterns of the program. We integrated rasbhari into Spaced Words; the source code of rasbhari is freely available at http://rasbhari.gobics.de/.

  8. Analysis Of Direct Numerical Simulation Results Of Adverse Pressure Gradient Boundary Layer Through Anisotropy Invariant Mapping And Comparison With The Rans Simulations

    NASA Astrophysics Data System (ADS)

    Gungor, Ayse Gul; Nural, Ozan Ekin; Ertunc, Ozgur

    2017-11-01

    Purpose of this study is to analyze the direct numerical simulation data of a turbulent boundary layer subjected to strong adverse pressure gradient through anisotropy invariant mapping. RANS simulation using the ``Elliptic Blending Model'' of Manceau and Hanjolic (2002) is also conducted for the same flow case with commercial software Star-CCM+ and comparison of the results with DNS data is done. RANS simulation captures the general trends in the velocity field but, significant deviations are found when skin friction coefficients are compared. Anisotropy invariant map of Lumley and Newman (1977) and barycentric map of Banerjee et al. (2007) are used for the analysis. Invariant mapping of the DNS data has yielded that at locations away from the wall, flow is close to one component turbulence state. In the vicinity of the wall, turbulence is at two component limit which is one border of the barycentric map and as the flow evolves along the streamwise direction, it approaches to two component turbulence state. Additionally, at the locations away from the wall, turbulence approaches to two component limit. Furthermore, analysis of the invariants of the RANS simulations shows dissimilar results. In RANS simulations invariants do not approach to any of the limit states unlike the DNS.

  9. A Comparison of Two Skip Entry Guidance Algorithms

    NASA Technical Reports Server (NTRS)

    Rea, Jeremy R.; Putnam, Zachary R.

    2007-01-01

    The Orion capsule vehicle will have a Lift-to-Drag ratio (L/D) of 0.3-0.35. For an Apollo-like direct entry into the Earth's atmosphere from a lunar return trajectory, this L/D will give the vehicle a maximum range of about 2500 nm and a maximum crossrange of 216 nm. In order to y longer ranges, the vehicle lift must be used to loft the trajectory such that the aerodynamic forces are decreased. A Skip-Trajectory results if the vehicle leaves the sensible atmosphere and a second entry occurs downrange of the atmospheric exit point. The Orion capsule is required to have landing site access (either on land or in water) inside the Continental United States (CONUS) for lunar returns anytime during the lunar month. This requirement means the vehicle must be capable of flying ranges of at least 5500 nm. For the L/D of the vehicle, this is only possible with the use of a guided Skip-Trajectory. A skip entry guidance algorithm is necessary to achieve this requirement. Two skip entry guidance algorithms have been developed: the Numerical Skip Entry Guidance (NSEG) algorithm was developed at NASA/JSC and PredGuid was developed at Draper Laboratory. A comparison of these two algorithms will be presented in this paper. Each algorithm has been implemented in a high-fidelity, 6 degree-of-freedom simulation called the Advanced NASA Technology Architecture for Exploration Studies (ANTARES). NASA and Draper engineers have completed several monte carlo analyses in order to compare the performance of each algorithm in various stress states. Each algorithm has been tested for entry-to-target ranges to include direct entries and skip entries of varying length. Dispersions have been included on the initial entry interface state, vehicle mass properties, vehicle aerodynamics, atmosphere, and Reaction Control System (RCS). Performance criteria include miss distance to the target, RCS fuel usage, maximum g-loads and heat rates for the first and second entry, total heat load, and control

  10. Development of a quantitative pachytene chromosome map and its unification with somatic chromosome and linkage maps of rice (Oryza sativa L.).

    PubMed

    Ohmido, Nobuko; Iwata, Aiko; Kato, Seiji; Wako, Toshiyuki; Fukui, Kiichi

    2018-01-01

    A quantitative pachytene chromosome map of rice (Oryza sativa L.) was developed using imaging methods. The map depicts not only distribution patterns of chromomeres specific to pachytene chromosomes, but also the higher order information of chromosomal structures, such as heterochromatin (condensed regions), euchromatin (decondensed regions), the primary constrictions (centromeres), and the secondary constriction (nucleolar organizing regions, NOR). These features were image analyzed and quantitatively mapped onto the map by Chromosome Image Analyzing System ver. 4.0 (CHIAS IV). Correlation between H3K9me2, an epigenetic marker and formation and/or maintenance of heterochromatin, thus was, clearly visualized. Then the pachytene chromosome map was unified with the existing somatic chromosome and linkage maps by physically mapping common DNA markers among them, such as a rice A genome specific tandem repeat sequence (TrsA), 5S and 45S ribosomal RNA genes, five bacterial artificial chromosome (BAC) clones, four P1 bacteriophage artificial chromosome (PAC) clones using multicolor fluorescence in situ hybridization (FISH). Detailed comparison between the locations of the DNA probes on the pachytene chromosomes using multicolor FISH, and the linkage map enabled determination of the chromosome number and short/long arms of individual pachytene chromosomes using the chromosome number and arm assignment designated for the linkage map. As a result, the quantitative pachytene chromosome map was unified with two other major rice chromosome maps representing somatic prometaphase chromosomes and genetic linkages. In conclusion, the unification of the three rice maps serves as an indispensable basic information, not only for an in-depth comparison between genetic and chromosomal data, but also for practical breeding programs.

  11. Alternative methods for the median lethal dose (LD(50)) test: the up-and-down procedure for acute oral toxicity.

    PubMed

    Rispin, Amy; Farrar, David; Margosches, Elizabeth; Gupta, Kailash; Stitzel, Katherine; Carr, Gregory; Greene, Michael; Meyer, William; McCall, Deborah

    2002-01-01

    The authors have developed an improved version of the up-and-down procedure (UDP) as one of the replacements for the traditional acute oral toxicity test formerly used by the Organisation for Economic Co-operation and Development member nations to characterize industrial chemicals, pesticides, and their mixtures. This method improves the performance of acute testing for applications that use the median lethal dose (classic LD50) test while achieving significant reductions in animal use. It uses sequential dosing, together with sophisticated computer-assisted computational methods during the execution and calculation phases of the test. Staircase design, a form of sequential test design, can be applied to acute toxicity testing with its binary experimental endpoints (yes/no outcomes). The improved UDP provides a point estimate of the LD50 and approximate confidence intervals in addition to observed toxic signs for the substance tested. It does not provide information about the dose-response curve. Computer simulation was used to test performance of the UDP without the need for additional laboratory validation.

  12. Analyses of mode filling factor of a laser end-pumped by a LD with high-order transverse modes

    NASA Astrophysics Data System (ADS)

    Han, Juhong; Wang, You; An, Guofei; Rong, Kepeng; Yu, Hang; Wang, Shunyan; Zhang, Wei; Cai, He; Xue, Liangping; Wang, Hongyuan; Zhou, Jie

    2017-05-01

    Although the concept of the mode filling factor (also named as "mode-matching efficiency") has been well discussed decades before, the concept of so-called overlap coefficient is often confused by the laser technicians because there are several different formulae for various engineering purposes. Furthermore, the LD-pumped configurations have become the mainstream of solid-state lasers since their compact size, high optical-to-optical efficiency, low heat generation, etc. As the beam quality of LDs are usually very unsatisfactory, it is necessary to investigate how the mode filling factor of a laser system is affected by a high-powered LD pump source. In this paper, theoretical analyses of an end-pumped laser are carried out based on the normalized overlap coefficient formalism. The study provides a convenient tool to describe the intrinsically complex issue of mode interaction corresponding to a laser and an end-pumped source. The mode filling factor has been studied for many cases in which the pump mode and the laser mode have been considered together in the calculation based on analyses of the rate equations. The results should be applied for analyses of any other types of lasers with the similar optical geometry.

  13. Mapping Potassium

    NASA Image and Video Library

    2015-04-16

    During the first year of NASA MESSENGER orbital mission, the spacecraft GRS instrument measured the elemental composition of Mercury surface materials. mong the most important discoveries from the GRS was the observation of higher abundances of the moderately volatile elements potassium, sodium, and chlorine than expected from previous scientific models and theories. Particularly high concentrations of these elements were observed at high northern latitudes, as illustrated in this potassium abundance map, which provides a view of the surface centered at 60° N latitude and 120° E longitude. This map was the first elemental map ever made of Mercury's surface and is to-date the only map to report absolute elemental concentrations, in comparison to element ratios. Prior to MESSENGER's arrival at Mercury, scientists expected that the planet would be depleted in moderately volatile elements, as is the case for our Moon. The unexpectedly high abundances observed with the GRS have forced a reevaluation of our understanding of the formation and evolution of Mercury. In addition, the K map provided the first evidence for distinct geochemical terranes on Mercury, as the high-potassium region was later found to also be distinct in its low Mg/Si, Ca/Si, S/Si, and high Na/Si and Cl/Si abundances. Instrument: Gamma-Ray Spectrometer (GRS) http://photojournal.jpl.nasa.gov/catalog/PIA19414

  14. A low timing jitter picosecond microchip laser pumped by pulsed LD

    NASA Astrophysics Data System (ADS)

    Wang, Sha; Wang, Yan-biao; Feng, Guoying; Zhou, Shou-huan

    2016-07-01

    SESAM passively Q-switched microchip laser is a very promising instrument to replace mode locked lasers to obtain picosecond pulses. The biggest drawback of a passively Q-switched microchip laser is its un-avoided large timing jitter, especially when the pump intensity is low, i.e. at low laser repetition rate range. In order to obtain a low timing jitter passively Q-switched picosecond microchip laser in the whole laser repetition rate range, a 1000 kHz pulsed narrow bandwidth Fiber Bragg Grating (FBG) stablized laser diode was used as the pump source. By tuning the pump intensity, we could control the output laser frequency. In this way, we achieved a very low timing jitter passively Q-switched picosecond laser at 2.13 mW, 111.1 kHz. The relative timing jitter was only 0.0315%, which was around 100 times smaller compared with a cw LD pumped microchip working at hundred kilohertz repetition rate frequency range.

  15. Comparison of Fuzzy-Based Models in Landslide Hazard Mapping

    NASA Astrophysics Data System (ADS)

    Mijani, N.; Neysani Samani, N.

    2017-09-01

    Landslide is one of the main geomorphic processes which effects on the development of prospect in mountainous areas and causes disastrous accidents. Landslide is an event which has different uncertain criteria such as altitude, slope, aspect, land use, vegetation density, precipitation, distance from the river and distance from the road network. This research aims to compare and evaluate different fuzzy-based models including Fuzzy Analytic Hierarchy Process (Fuzzy-AHP), Fuzzy Gamma and Fuzzy-OR. The main contribution of this paper reveals to the comprehensive criteria causing landslide hazard considering their uncertainties and comparison of different fuzzy-based models. The quantify of evaluation process are calculated by Density Ratio (DR) and Quality Sum (QS). The proposed methodology implemented in Sari, one of the city of Iran which has faced multiple landslide accidents in recent years due to the particular environmental conditions. The achieved results of accuracy assessment based on the quantifier strated that Fuzzy-AHP model has higher accuracy compared to other two models in landslide hazard zonation. Accuracy of zoning obtained from Fuzzy-AHP model is respectively 0.92 and 0.45 based on method Precision (P) and QS indicators. Based on obtained landslide hazard maps, Fuzzy-AHP, Fuzzy Gamma and Fuzzy-OR respectively cover 13, 26 and 35 percent of the study area with a very high risk level. Based on these findings, fuzzy-AHP model has been selected as the most appropriate method of zoning landslide in the city of Sari and the Fuzzy-gamma method with a minor difference is in the second order.

  16. Stress Corrosion Cracking Behavior of LD10 Aluminum Alloy in UDMH and N2O4 propellant

    NASA Astrophysics Data System (ADS)

    Zhang, Youhong; Chang, Xinlong; Liu, Wanlei

    2018-03-01

    The LD10 aluminum alloy double cantilever beam specimens were corroded under the conditions of Unsymmetric Uimethyl Hydrazine (UDMH), Dinitrogen Tetroxide (N2O4), and 3.5% NaCl environment. The crack propagation behavior of the aluminum alloy in different corrosion environment was analyzed. The stress corrosion cracking behavior of aluminum alloy in N2O4 is relatively slight and there are not evident stress corrosion phenomenons founded in UDMH.

  17. Comparison of PV signal quality using a novel circular mapping and ablation catheter versus a standard circular mapping catheter.

    PubMed

    von Bary, Christian; Fredersdorf-Hahn, Sabine; Heinicke, Norbert; Jungbauer, Carsten; Schmid, Peter; Riegger, Günter A; Weber, Stefan

    2011-08-01

    Recently, new catheter technologies have been developed for atrial fibrillation (AF) ablation. We investigate the diagnostic accuracy of a circular mapping and pulmonary vein ablation catheter (PVAC) compared with a standard circular mapping catheter (Orbiter) and the influence of filter settings on signal quality. After reconstruction of the left atrium by three-dimensional atriography, baseline PV potentials (PVP) were recorded consecutively with PVAC and Orbiter in 20 patients with paroxysmal AF. PVPs were compared and attributed to predefined anatomical PV segments. Ablation was performed in 80 PVs using the PVAC. If isolation of the PVs was assumed, signal assessment of each PV was repeated with the Orbiter. If residual PV potentials could be uncovered, different filter settings were tested to improve mapping quality of the PVAC. Ablation was continued until complete PV isolation (PVI) was confirmed with the Orbiter. Baseline mapping demonstrated a good correlation between the Orbiter and PVAC. Mapping accuracy using the PVAC for mapping and ablation was 94% (74 of 79 PVs). Additional mapping with the Orbiter improved the PV isolation rate to 99%. Adjustment of filter settings failed to improve quality of the PV signals compared with standard filter settings. Using the PVAC as a stand-alone strategy for mapping and ablation, one should be aware that in some cases, different signal morphology mimics PVI isolation. Adjustment of filter settings failed to improve signal quality. The use of an additional mapping catheter is recommended to become familiar with the particular signal morphology during the first PVAC cases or whenever there is a doubt about successful isolation of the pulmonary veins.

  18. Genetic characterization of a core collection of flax (Linum usitatissimum L.) suitable for association mapping studies and evidence of divergent selection between fiber and linseed types

    PubMed Central

    2013-01-01

    Background Flax is valued for its fiber, seed oil and nutraceuticals. Recently, the fiber industry has invested in the development of products made from linseed stems, making it a dual purpose crop. Simultaneous targeting of genomic regions controlling stem fiber and seed quality traits could enable the development of dual purpose cultivars. However, the genetic diversity, population structure and linkage disequilibrium (LD) patterns necessary for association mapping (AM) have not yet been assessed in flax because genomic resources have only recently been developed. We characterized 407 globally distributed flax accessions using 448 microsatellite markers. The data was analyzed to assess the suitability of this core collection for AM. Genomic scans to identify candidate genes selected during the divergent breeding process of fiber flax and linseed were conducted using the whole genome shotgun sequence of flax. Results Combined genetic structure analysis assigned all accessions to two major groups with six sub-groups. Population differentiation was weak between the major groups (FST = 0.094) and for most of the pairwise comparisons among sub-groups. The molecular coancestry analysis indicated weak relatedness (mean = 0.287) for most individual pairs. Abundant genetic diversity was observed in the total panel (5.32 alleles per locus), and some sub-groups showed a high proportion of private alleles. The average genome-wide LD (r2) was 0.036, with a relatively fast decay of 1.5 cM. Genomic scans between fiber flax and linseed identified candidate genes involved in cell-wall biogenesis/modification, xylem identity and fatty acid biosynthesis congruent with genes previously identified in flax and other plant species. Conclusions Based on the abundant genetic diversity, weak population structure and relatedness and relatively fast LD decay, we concluded that this core collection is suitable for AM studies targeting multiple agronomic and quality traits aiming at

  19. Genetic characterization of a core collection of flax (Linum usitatissimum L.) suitable for association mapping studies and evidence of divergent selection between fiber and linseed types.

    PubMed

    Soto-Cerda, Braulio J; Diederichsen, Axel; Ragupathy, Raja; Cloutier, Sylvie

    2013-05-06

    Flax is valued for its fiber, seed oil and nutraceuticals. Recently, the fiber industry has invested in the development of products made from linseed stems, making it a dual purpose crop. Simultaneous targeting of genomic regions controlling stem fiber and seed quality traits could enable the development of dual purpose cultivars. However, the genetic diversity, population structure and linkage disequilibrium (LD) patterns necessary for association mapping (AM) have not yet been assessed in flax because genomic resources have only recently been developed. We characterized 407 globally distributed flax accessions using 448 microsatellite markers. The data was analyzed to assess the suitability of this core collection for AM. Genomic scans to identify candidate genes selected during the divergent breeding process of fiber flax and linseed were conducted using the whole genome shotgun sequence of flax. Combined genetic structure analysis assigned all accessions to two major groups with six sub-groups. Population differentiation was weak between the major groups (F(ST) = 0.094) and for most of the pairwise comparisons among sub-groups. The molecular coancestry analysis indicated weak relatedness (mean = 0.287) for most individual pairs. Abundant genetic diversity was observed in the total panel (5.32 alleles per locus), and some sub-groups showed a high proportion of private alleles. The average genome-wide LD (r²) was 0.036, with a relatively fast decay of 1.5 cM. Genomic scans between fiber flax and linseed identified candidate genes involved in cell-wall biogenesis/modification, xylem identity and fatty acid biosynthesis congruent with genes previously identified in flax and other plant species. Based on the abundant genetic diversity, weak population structure and relatedness and relatively fast LD decay, we concluded that this core collection is suitable for AM studies targeting multiple agronomic and quality traits aiming at the improvement of flax as a

  20. A maize map standard with sequenced core markers, grass genome reference points and 932 expressed sequence tagged sites (ESTs) in a 1736-locus map.

    PubMed Central

    Davis, G L; McMullen, M D; Baysdorfer, C; Musket, T; Grant, D; Staebell, M; Xu, G; Polacco, M; Koster, L; Melia-Hancock, S; Houchins, K; Chao, S; Coe, E H

    1999-01-01

    We have constructed a 1736-locus maize genome map containing1156 loci probed by cDNAs, 545 probed by random genomic clones, 16 by simple sequence repeats (SSRs), 14 by isozymes, and 5 by anonymous clones. Sequence information is available for 56% of the loci with 66% of the sequenced loci assigned functions. A total of 596 new ESTs were mapped from a B73 library of 5-wk-old shoots. The map contains 237 loci probed by barley, oat, wheat, rice, or tripsacum clones, which serve as grass genome reference points in comparisons between maize and other grass maps. Ninety core markers selected for low copy number, high polymorphism, and even spacing along the chromosome delineate the 100 bins on the map. The average bin size is 17 cM. Use of bin assignments enables comparison among different maize mapping populations and experiments including those involving cytogenetic stocks, mutants, or quantitative trait loci. Integration of nonmaize markers in the map extends the resources available for gene discovery beyond the boundaries of maize mapping information into the expanse of map, sequence, and phenotype information from other grass species. This map provides a foundation for numerous basic and applied investigations including studies of gene organization, gene and genome evolution, targeted cloning, and dissection of complex traits. PMID:10388831

  1. CMap 1.01: a comparative mapping application for the internet

    USDA-ARS?s Scientific Manuscript database

    CMap is a web-based tool for displaying and comparing maps of any type and from any species. A user can compare an unlimited number of maps, view pair-wise comparisons of known correspondences, and search for maps or for features by name, species, type and accession. CMap is freely available, can ...

  2. Aromatic dipeptides and their salts—Solid-state linear-dichroic infrared (IR-LD) spectral analysis and ab initio calculations

    NASA Astrophysics Data System (ADS)

    Ivanova, Bojidarka B.

    2008-07-01

    Stereo-structural analysis and IR-bands assignment of the aromatic dipeptides L-tryrosyl- L-phenylalanine ( Tyr-Phe), L-phenylalanyl- L-tyrosine ( Phe-Tyr) and their hydrochloride salts have been carried out by means of IR-LD spectroscopy of oriented as nematic liquid crystal suspension solid samples. The experimental data are compared with known crystallographic ones and theoretical predicted geometries at RHF/ and UHF/6-31G**.

  3. AFRICAN GENETIC DIVERSITY: Implications for Human Demographic History, Modern Human Origins, and Complex Disease Mapping

    PubMed Central

    Campbell, Michael C.; Tishkoff, Sarah A.

    2010-01-01

    Comparative studies of ethnically diverse human populations, particularly in Africa, are important for reconstructing human evolutionary history and for understanding the genetic basis of phenotypic adaptation and complex disease. African populations are characterized by greater levels of genetic diversity, extensive population substructure, and less linkage disequilibrium (LD) among loci compared to non-African populations. Africans also possess a number of genetic adaptations that have evolved in response to diverse climates and diets, as well as exposure to infectious disease. This review summarizes patterns and the evolutionary origins of genetic diversity present in African populations, as well as their implications for the mapping of complex traits, including disease susceptibility. PMID:18593304

  4. Identification of associated SSR markers for yield component and fiber quality traits based on frame map and Upland cotton collections.

    PubMed

    Qin, Hongde; Chen, Min; Yi, Xianda; Bie, Shu; Zhang, Cheng; Zhang, Youchang; Lan, Jiayang; Meng, Yanyan; Yuan, Youlu; Jiao, Chunhai

    2015-01-01

    Detecting QTLs (quantitative trait loci) that enhance cotton yield and fiber quality traits and accelerate breeding has been the focus of many cotton breeders. In the present study, 359 SSR (simple sequence repeat) markers were used for the association mapping of 241 Upland cotton collections. A total of 333 markers, representing 733 polymorphic loci, were detected. The average linkage disequilibrium (LD) decay distances were 8.58 cM (r2 > 0.1) and 5.76 cM (r2 > 0.2). 241 collections were arranged into two subgroups using STRUCTURE software. Mixed linear modeling (MLM) methods (with population structure (Q) and relative kinship matrix (K)) were applied to analyze four phenotypic datasets obtained from four environments (two different locations and two years). Forty-six markers associated with the number of bolls per plant (NB), boll weight (BW), lint percentage (LP), fiber length (FL), fiber strength (FS) and fiber micornaire value (FM) were repeatedly detected in at least two environments. Of 46 associated markers, 32 were identified as new association markers, and 14 had been previously reported in the literature. Nine association markers were near QTLs (at a distance of less than 1-2 LD decay on the reference map) that had been previously described. These results provide new useful markers for marker-assisted selection in breeding programs and new insights for understanding the genetic basis of Upland cotton yields and fiber quality traits at the whole-genome level.

  5. Improved methods for multi-trait fine mapping of pleiotropic risk loci.

    PubMed

    Kichaev, Gleb; Roytman, Megan; Johnson, Ruth; Eskin, Eleazar; Lindström, Sara; Kraft, Peter; Pasaniuc, Bogdan

    2017-01-15

    Genome-wide association studies (GWAS) have identified thousands of regions in the genome that contain genetic variants that increase risk for complex traits and diseases. However, the variants uncovered in GWAS are typically not biologically causal, but rather, correlated to the true causal variant through linkage disequilibrium (LD). To discern the true causal variant(s), a variety of statistical fine-mapping methods have been proposed to prioritize variants for functional validation. In this work we introduce a new approach, fastPAINTOR, that leverages evidence across correlated traits, as well as functional annotation data, to improve fine-mapping accuracy at pleiotropic risk loci. To improve computational efficiency, we describe an new importance sampling scheme to perform model inference. First, we demonstrate in simulations that by leveraging functional annotation data, fastPAINTOR increases fine-mapping resolution relative to existing methods. Next, we show that jointly modeling pleiotropic risk regions improves fine-mapping resolution compared to standard single trait and pleiotropic fine mapping strategies. We report a reduction in the number of SNPs required for follow-up in order to capture 90% of the causal variants from 23 SNPs per locus using a single trait to 12 SNPs when fine-mapping two traits simultaneously. Finally, we analyze summary association data from a large-scale GWAS of lipids and show that these improvements are largely sustained in real data. The fastPAINTOR framework is implemented in the PAINTOR v3.0 package which is publicly available to the research community http://bogdan.bioinformatics.ucla.edu/software/paintor CONTACT: gkichaev@ucla.eduSupplementary information: Supplementary data are available at Bioinformatics online. © The Author 2016. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

  6. Early Grade Writing Assessment: An Instrument Model.

    PubMed

    Jiménez, Juan E

    The United Nations Educational, Scientific, and Cultural Organization promoted the creation of a model instrument for individual assessment of students' foundational writing skills in the Spanish language that was based on a literature review and existing writing tools and assessments. The purpose of the Early Grade Writing Assessment (EGWA) is to document learners' basic writing skills, mapped in composing units of increasing complexity to communicate meaning. Validation and standardization of EGWA was conducted in the Canary Islands (Spain) in 12 schools using a cross-sectional design with a sample of 1,653 Spanish-speaking students in Grades 1 through 3. The author describes EGWA's internal structure, along with the prevalence of learning disabilities (LD) in transcription and developmental differences in writing between Spanish-speaking children with LD and typical peers. Findings suggest that EGWA's psychometric characteristics are satisfactory, and its internal structure can be attributed to four factors responsible for a high percentage of the variance. The odds ratio indicated that 2 Spanish-speaking children with LD in transcription are identified out of every 100. A comparison between students with and without LD in transcription revealed statistically significant differences concerning sentence and text production across grades. Results are interpreted within current theoretical accounts of writing models.

  7. Admixture in Hispanic-Americans: Its impact on ITGAM association and implications for admixture mapping in SLE

    PubMed Central

    Molineros, Julio E.; Kim-Howard, Xana; Deshmukh, Harshal; Jacob, Chaim O.; Harley, John B.; Nath, Swapan K.

    2009-01-01

    Systemic Lupus Erythematosus (SLE) disproportionately affects minorities, such as Hispanic-Americans. Prevalence of SLE is 3–5 times higher in Hispanic Americans (HA) than European derived populations, and have more active disease at the time of diagnosis, with more serious organ system involvement. HA is an admixed population, it is possible that there is an effect of admixture on the relative risk of disease. This admixture can create substantial increase of linkage disequilibrium (LD) in both magnitude and range, which can provide a unique opportunity for admixture mapping. Main objectives of this study are to (a) estimate hidden population structure in HA individuals; (b) estimate individual ancestry proportions and its impact on SLE risk; (c) assess impact of admixture on ITGAM association, a recently identified SLE susceptibility gene; and (d) estimate power of admixture mapping in HA. Our dataset contained 1,125 individuals, of whom 884 (657 SLE cases and 227 controls) were self classified as HA. Using 107 unlinked ancestry informative markers (AIMs) we estimated hidden population structure and individual ancestry in HA. Out of 5,671 possible pair-wise LD, 54% were statistically significant, indicating recent population admixture. The best fitted model for HA was a four population model with average ancestry of European (48%), American-Indian (40%), African (8%) and a fourth population (4%) with unknown ancestry. We also identified significant higher risk associated with American-Indian ancestry (OR=4.84, P=0.0001, 95%CI=2.14—10.95) on overall SLE. We showed that ITGAM is associated as a risk factor for SLE (OR= 2.06, P=8.74×10−5, 95%CI=1.44–2.97). This association is not affected by population substructure or admixture. We have demonstrated that HA have great potential and are an 3 appropriate population for admixture mapping. As expected, the case-only design is more powerful than case-control design, for any given admixture proportion or ancestry

  8. Admixture in Hispanic Americans: its impact on ITGAM association and implications for admixture mapping in SLE.

    PubMed

    Molineros, J E; Kim-Howard, X; Deshmukh, H; Jacob, C O; Harley, J B; Nath, S K

    2009-07-01

    Systemic Lupus Erythematosus (SLE) disproportionately affects minorities, such as Hispanic Americans (HA). Prevalence of SLE is 3-5 times higher in HA than in European-derived populations and have more active disease at the time of diagnosis, with more serious organ system involvement. HA is an admixed population, it is possible that there is an effect of admixture on the relative risk of the disease. This admixture can create substantial increase of linkage disequilibrium (LD) in both magnitude and range, which can provide a unique opportunity for admixture mapping. The main objectives of this study are to (a) estimate hidden population structure in HA individuals; (b) estimate individual ancestry proportions and its impact on SLE risk; (c) assess impact of admixture on ITGAM association, a recently identified SLE susceptibility gene; and (d) estimate power of admixture mapping in HA. Our dataset contained 1125 individuals, of whom 884 (657 SLE cases and 227 controls) were self-classified as HA. Using 107 unlinked ancestry informative markers (AIMs), we estimated hidden population structure and individual ancestry in HA. Out of 5671 possible pairwise LD, 54% were statistically significant, indicating recent population admixture. The best-fitted model for HA was a four-population model with average ancestry of European (48%), American-Indian (AI) (40%), African (8%) and a fourth population (4%) with unknown ancestry. We also identified significant higher risk associated with AI ancestry (odds ratio (OR)=4.84, P=0.0001, 95% CI (confidence interval)=2.14-10.95) on overall SLE. We showed that ITGAM is associated as a risk factor for SLE (OR=2.06, P=8.74 x 10(-5), 95% CI=1.44-2.97). This association is not affected by population substructure or admixture. We have shown that HA have great potential and are an appropriate population for admixture mapping. As expected, the case-only design is more powerful than case-control design, for any given admixture proportion or

  9. A Comparison of Lightning Flashes as Observed by the Lightning Imaging Sensor and the North Alabama Lightning Mapping Array

    NASA Technical Reports Server (NTRS)

    Bateman, M. G.; Mach, D. M.; McCaul, M. G.; Bailey, J. C.; Christian, H. J.

    2008-01-01

    The Lightning Imaging Sensor (LIS) aboard the TRMM satellite has been collecting optical lightning data since November 1997. A Lightning Mapping Array (LMA) that senses VHF impulses from lightning was installed in North Alabama in the Fall of 2001. A dataset has been compiled to compare data from both instruments for all times when the LIS was passing over the domain of our LMA. We have algorithms for both instruments to group pixels or point sources into lightning flashes. This study presents the comparison statistics of the flash data output (flash duration, size, and amplitude) from both algorithms. We will present the results of this comparison study and show "point-level" data to explain the differences. AS we head closer to realizing a Global Lightning Mapper (GLM) on GOES-R, better understanding and ground truth of each of these instruments and their respective flash algorithms is needed.

  10. Lens models under the microscope: comparison of Hubble Frontier Field cluster magnification maps

    NASA Astrophysics Data System (ADS)

    Priewe, Jett; Williams, Liliya L. R.; Liesenborgs, Jori; Coe, Dan; Rodney, Steven A.

    2017-02-01

    Using the power of gravitational lensing magnification by massive galaxy clusters, the Hubble Frontier Fields provide deep views of six patches of the high-redshift Universe. The combination of deep Hubble imaging and exceptional lensing strength has revealed the greatest numbers of multiply-imaged galaxies available to constrain models of cluster mass distributions. However, even with O(100) images per cluster, the uncertainties associated with the reconstructions are not negligible. The goal of this paper is to show the diversity of model magnification predictions. We examine seven and nine mass models of Abell 2744 and MACS J0416, respectively, submitted to the Mikulski Archive for Space Telescopes for public distribution in 2015 September. The dispersion between model predictions increases from 30 per cent at common low magnifications (μ ˜ 2) to 70 per cent at rare high magnifications (μ ˜ 40). MACS J0416 exhibits smaller dispersions than Abell 2744 for 2 < μ < 10. We show that magnification maps based on different lens inversion techniques typically differ from each other by more than their quoted statistical errors. This suggests that some models underestimate the true uncertainties, which are primarily due to various lensing degeneracies. Though the exact mass sheet degeneracy is broken, its generalized counterpart is not broken at least in Abell 2744. Other local degeneracies are also present in both clusters. Our comparison of models is complementary to the comparison of reconstructions of known synthetic mass distributions. By focusing on observed clusters, we can identify those that are best constrained, and therefore provide the clearest view of the distant Universe.

  11. Determination of the LD50 of acridine orange via intravenous administration in mice in preparation for clinical application to cancer therapy.

    PubMed

    Nakamura, Tomoki; Kusuzaki, Katsuyuki; Matsubara, Takao; Matsumine, Akihiko; Asanuma, Kunihiro; Satonaka, Haruhiko; Uchida, Atsumasa; Sudo, Akihiro

    2014-01-01

    We undertook studies to determine the lethal dose 50 (LD50) of acridine orange (AO) using mice in order to confirm the safety of intravenous administration of AO. We used 40 mice and AO was administered once intravenously. General behavior and mortality were continuously observed for 14 days. At the end of the experiment, all animals were sacrificed for subsequent studies. The LD50 for AO in male and female mice was determined to be 32 mg/kg and 36 mg/kg, respectively. Histopathological abnormalities were observed in only one mouse which died three days after the administration of AO. The other nine mice which died immediately after the administration of AO had no pathological findings in major organs. The clinical use of AO can be kept at 1.0 mg/kg or below and, therefore, intravenous administration of AO might be safe for use as cancer therapy. Copyright © 2014 International Institute of Anticancer Research (Dr. John G. Delinassios), All rights reserved.

  12. LD-SPatt: large deviations statistics for patterns on Markov chains.

    PubMed

    Nuel, G

    2004-01-01

    Statistics on Markov chains are widely used for the study of patterns in biological sequences. Statistics on these models can be done through several approaches. Central limit theorem (CLT) producing Gaussian approximations are one of the most popular ones. Unfortunately, in order to find a pattern of interest, these methods have to deal with tail distribution events where CLT is especially bad. In this paper, we propose a new approach based on the large deviations theory to assess pattern statistics. We first recall theoretical results for empiric mean (level 1) as well as empiric distribution (level 2) large deviations on Markov chains. Then, we present the applications of these results focusing on numerical issues. LD-SPatt is the name of GPL software implementing these algorithms. We compare this approach to several existing ones in terms of complexity and reliability and show that the large deviations are more reliable than the Gaussian approximations in absolute values as well as in terms of ranking and are at least as reliable as compound Poisson approximations. We then finally discuss some further possible improvements and applications of this new method.

  13. [Neurological and neuropsychological comparison between subjects with learning disorder and those suffering from learning difficulties when eeg abnormalities are detected at pediatric age].

    PubMed

    Borsetti, L; Viberti, B; Ariano, C; Isocrono, A

    2015-12-01

    The objective of the study is to compare data and investigate the points of overlap between the two clinical conditions. The hypothesis is to observe a similar cognitive and neuropsychological profile in LD children and subjects with electroencephalogram (EEG) abnormalities. The present study consists of a descriptive analysis of 35 children who have been tested for suspected learning disorder (LD). The diagnostic protocol includes a detailed cognitive and neuropsychological evaluation, as well as logopedic and neuropsychomotor assessment. Children carried neurological visit, EEG in waking and encephalic nuclear magnetic resonance (NMR). In this study, anamnestic data and the results of some of the neuropsychological tests were administrated to children and subsequently were analyzed. Depending on EEG report (positive or negative), subjects were split in two subsample: subjects with "pure" LD and subjects who showed significant paroxysmal abnormalities at the EEG. This comparison shows that the profile of the two subsamples matches for many aspects. The only statistically significant differences are the increased impairment of meta-phonological skills and reading speed in children with EEG abnormalities. On the other hand, children with "pure" LD are inclined to manifest more frequently difficulties in highly-modularized processes, such as counting. In conclusion, the substantial overlap of the two profiles causes a reflection about the difficulty in making differential diagnosis in children who show a suspected LD, in absence of an accurate neurophysiological and neuroradiological investigation. The study did not find out useful markers to select subjects who should carry EEG and encephalic NMR. Our team established to keep EEG in waking in the diagnostic protocol, for all children with LD diagnosis. Only in case of abnormalities at the track, we prescribed EEG in sleeping and encephalic NMR.

  14. Optimization with artificial neural network systems - A mapping principle and a comparison to gradient based methods

    NASA Technical Reports Server (NTRS)

    Leong, Harrison Monfook

    1988-01-01

    General formulae for mapping optimization problems into systems of ordinary differential equations associated with artificial neural networks are presented. A comparison is made to optimization using gradient-search methods. The performance measure is the settling time from an initial state to a target state. A simple analytical example illustrates a situation where dynamical systems representing artificial neural network methods would settle faster than those representing gradient-search. Settling time was investigated for a more complicated optimization problem using computer simulations. The problem was a simplified version of a problem in medical imaging: determining loci of cerebral activity from electromagnetic measurements at the scalp. The simulations showed that gradient based systems typically settled 50 to 100 times faster than systems based on current neural network optimization methods.

  15. A Heuristic Approach to Global Landslide Susceptibility Mapping

    NASA Technical Reports Server (NTRS)

    Stanley, Thomas; Kirschbaum, Dalia B.

    2017-01-01

    Landslides can have significant and pervasive impacts to life and property around the world. Several attempts have been made to predict the geographic distribution of landslide activity at continental and global scales. These efforts shared common traits such as resolution, modeling approach, and explanatory variables. The lessons learned from prior research have been applied to build a new global susceptibility map from existing and previously unavailable data. Data on slope, faults, geology, forest loss, and road networks were combined using a heuristic fuzzy approach. The map was evaluated with a Global Landslide Catalog developed at the National Aeronautics and Space Administration, as well as several local landslide inventories. Comparisons to similar susceptibility maps suggest that the subjective methods commonly used at this scale are, for the most part, reproducible. However, comparisons of landslide susceptibility across spatial scales must take into account the susceptibility of the local subset relative to the larger study area. The new global landslide susceptibility map is intended for use in disaster planning, situational awareness, and for incorporation into global decision support systems.

  16. A Holocene Lake Record from Laguna Del Maule (LdM) in the Chilean Andes: Climatic and Volcanic Controls on Lake Depositional Dynamics

    NASA Astrophysics Data System (ADS)

    Valero-Garces, B. L.; Frugone Alvarez, M.; Barreiro-Lostres, F.; Carrevedo, M. L.; Latorre Hidalgo, C.; Giralt, S.; Maldonado, A.; Bernárdez, P.; Prego, R.; Moreno-Caballud, A.

    2014-12-01

    Central Chile is a tectonically active, drought-prone region sensitive to latitudinal variations in large-scale cold fronts associated with fluctuations of the Pacific subtropical high. Holocene high-resolution records of climate and volcanic events could help inform more on the frequency of extensive droughts as well as volcanic and seismic hazards. LdM is a high altitude, volcanic lake located in the Transition Southern Volcanic Zone (~36°S, 2200 m.a.s.l). The LdM volcanic field is a very seismically and volcanically active zone in the Andes, with several caldera-forming eruptions over the last 1.5 Ma, and intense postglacial activity. In 2013, we recovered over 40 m of sediment cores at four sites of LdM and collected > 20 km of seismic lines. The cores were imaged, their physical and geochemical properties analysed with a Geotek MSCL and XRF scanner respectively, and sampled for TOC, TIC, TS, TN, BioSi, and bulk mineralogy. The chronology was constructed with a Bayesian age-depth model including 210Pb-137Cs, the Quizapú volcanic ash (1932 AD) and 17 AMS 14C dates. The 4.8 m long composite sequence spans the Late glacial and Holocene.Sediments are massive to banded, quartz and plagioclase-rich silts with variable diatom (BioSi, 15- 30 %) and organic matter content (TOC, 1-5 %). Four main units have been defined based on sedimentological and geochemical composition. The transition from Unit 4 to 3 is ascribed to the onset of the Holocene; Unit 2 spans the mid Holocene, and Unit 1 the last 4 ka. Higher (lower) TOC, Br/Ti and Fe/Mn ratios in units 1 and 3 (2 and 4) suggest higher (lower) organic productivity in the lake and dominant oxic (anoxic) conditions at the bottom of the lake. Up to 17 ash and lapilli layers mark volcanic events, mostly grouped in units 1 and 3. Periods of higher lake productivity (units 1 and 3) are synchronous to higher frequency of volcanic events. Some climate transitions (LIA, 4ka, 8ka and 11ka) are evident in the LdM sequence

  17. Simultaneous comparison and assessment of eight remotely sensed maps of Philippine forests

    NASA Astrophysics Data System (ADS)

    Estoque, Ronald C.; Pontius, Robert G.; Murayama, Yuji; Hou, Hao; Thapa, Rajesh B.; Lasco, Rodel D.; Villar, Merlito A.

    2018-05-01

    This article compares and assesses eight remotely sensed maps of Philippine forest cover in the year 2010. We examined eight Forest versus Non-Forest maps reclassified from eight land cover products: the Philippine Land Cover, the Climate Change Initiative (CCI) Land Cover, the Landsat Vegetation Continuous Fields (VCF), the MODIS VCF, the MODIS Land Cover Type product (MCD12Q1), the Global Tree Canopy Cover, the ALOS-PALSAR Forest/Non-Forest Map, and the GlobeLand30. The reference data consisted of 9852 randomly distributed sample points interpreted from Google Earth. We created methods to assess the maps and their combinations. Results show that the percentage of the Philippines covered by forest ranges among the maps from a low of 23% for the Philippine Land Cover to a high of 67% for GlobeLand30. Landsat VCF estimates 36% forest cover, which is closest to the 37% estimate based on the reference data. The eight maps plus the reference data agree unanimously on 30% of the sample points, of which 11% are attributable to forest and 19% to non-forest. The overall disagreement between the reference data and Philippine Land Cover is 21%, which is the least among the eight Forest versus Non-Forest maps. About half of the 9852 points have a nested structure such that the forest in a given dataset is a subset of the forest in the datasets that have more forest than the given dataset. The variation among the maps regarding forest quantity and allocation relates to the combined effects of the various definitions of forest and classification errors. Scientists and policy makers must consider these insights when producing future forest cover maps and when establishing benchmarks for forest cover monitoring.

  18. Intercomparison of Satellite-Derived Snow-Cover Maps

    NASA Technical Reports Server (NTRS)

    Hall, Dorothy K.; Tait, Andrew B.; Foster, James L.; Chang, Alfred T. C.; Allen, Milan

    1999-01-01

    In anticipation of the launch of the Earth Observing System (EOS) Terra, and the PM-1 spacecraft in 1999 and 2000, respectively, efforts are ongoing to determine errors of satellite-derived snow-cover maps. EOS Moderate Resolution Imaging Spectroradiometer (MODIS) and Advanced Microwave Scanning Radiometer-E (AMSR-E) snow-cover products will be produced. For this study we compare snow maps covering the same study area acquired from different sensors using different snow- mapping algorithms. Four locations are studied: 1) southern Saskatchewan; 2) a part of New England (New Hampshire, Vermont and Massachusetts) and eastern New York; 3) central Idaho and western Montana; and 4) parts of North and South Dakota. Snow maps were produced using a prototype MODIS snow-mapping algorithm used on Landsat Thematic Mapper (TM) scenes of each study area at 30-m and when the TM data were degraded to 1 -km resolution. National Operational Hydrologic Remote Sensing Center (NOHRSC) 1 -km resolution snow maps were also used, as were snow maps derived from 1/2 deg. x 1/2 deg. resolution Special Sensor Microwave Imager (SSM/1) data. A land-cover map derived from the International Geosphere-Biosphere Program (IGBP) land-cover map of North America was also registered to the scenes. The TM, NOHRSC and SSM/I snow maps, and land-cover maps were compared digitally. In most cases, TM-derived maps show less snow cover than the NOHRSC and SSM/I maps because areas of incomplete snow cover in forests (e.g., tree canopies, branches and trunks) are seen in the TM data, but not in the coarser-resolution maps. The snow maps generally agree with respect to the spatial variability of the snow cover. The 30-m resolution TM data provide the most accurate snow maps, and are thus used as the baseline for comparison with the other maps. Comparisons show that the percent change in amount of snow cover relative to the 3 0-m resolution TM maps is lowest using the TM I -km resolution maps, ranging from 0 to 40

  19. Geological Mapping of the North Polar Region of Venus (V-1 Snegurochka Planitia): Significant Problems and Comparisons to the Earth's Archean

    NASA Technical Reports Server (NTRS)

    Head, James W.; Hurwitz, D. M.; Ivanov, M. A.; Basilevsky, A. T.; Kumar, P. Senthil

    2008-01-01

    The geological features, structures, thermal conditions, interpreted processes, and outstanding questions related to both the Earth's Archean and Venus share many similarities and we are using a problem-oriented approach to Venus mapping, guided by perspectives from the Archean record of the Earth, to gain new insight into both. The Earth's preserved and well-documented Archean record provides important insight into high heat-flux tectonic and magmatic environments and structures and Venus reveals the current configuration and recent geological record of analogous high-temperature environments unmodified by subsequent several billion years of segmentation and overprinting, as on Earth. We have problems on which progress might be made through comparison. Here we present the major goals of the geological mapping of the V-1 Snegurochka Planitia Quadrangle, and themes that could provide important insights into both planets:

  20. The geothermal gradient map of Central Tunisia: Comparison with structural, gravimetric and petroleum data

    NASA Astrophysics Data System (ADS)

    Dhia, Hamed Ben

    1987-10-01

    Five hundred and fifty temperature values, initially measured as either bottom-hole temperatures (BHT) or drill-stem tests (DST), from 98 selected petroleum exploration wells form the basis of a geothermal gradient map of central Tunisia. A "global-statistical" method was employed to correct the BHT measurements, using the DST as references. The geothermal gradient ranges from 23° to 49°C/km. Comparison of the geothermal gradient with structural, gravimetric and petroleum data indicates that: (1) the general trend of the geothermal gradient curves reflects the main structural directions of the region, (2) zones of low and high geothermal gradient are correlated with zones of negative and positive Bouguer anomalies and (3) the five most important oil fields of central Tunisia are located near the geothermal gradient curve of 40° C/km. Such associations could have practical importance in petroleum exploration, but their significance must first be established through further investigation and additional data.

  1. Association mapping analysis of fiber yield and quality traits in Upland cotton (Gossypium hirsutum L.).

    PubMed

    Ademe, Mulugeta Seyoum; He, Shoupu; Pan, Zhaoe; Sun, Junling; Wang, Qinglian; Qin, Hongde; Liu, Jinhai; Liu, Hui; Yang, Jun; Xu, Dongyong; Yang, Jinlong; Ma, Zhiying; Zhang, Jinbiao; Li, Zhikun; Cai, Zhongmin; Zhang, Xuelin; Zhang, Xin; Huang, Aifen; Yi, Xianda; Zhou, Guanyin; Li, Lin; Zhu, Haiyong; Pang, Baoyin; Wang, Liru; Jia, Yinhua; Du, Xiongming

    2017-12-01

    Fiber yield and quality are the most important traits for Upland cotton (Gossypium hirsutum L.). Identifying high yield and good fiber quality genes are the prime concern of researchers in cotton breeding. Association mapping offers an alternative and powerful method for detecting those complex agronomic traits. In this study, 198 simple sequence repeats (SSRs) were used to screen markers associated with fiber yield and quality traits with 302 elite Upland cotton accessions that were evaluated in 12 locations representing the Yellow River and Yangtze River cotton growing regions of China. Three subpopulations were found after the estimation of population structure. The pair-wise kinship values varied from 0 to 0.867. Only 1.59% of the total marker locus pairs showed significant linkage disequilibrium (LD, p < 0.001). The genome-wide LD decayed within the genetic distance of ~30 to 32 cM at r 2  = 0.1, and decreased to ~1 to 2 cM at r 2  = 0.2, indicating the potential for association mapping. Analysis based on a mixed linear model detected 57 significant (p < 0.01) marker-trait associations, including seven associations for fiber length, ten for fiber micronaire, nine for fiber strength, eight for fiber elongation, five for fiber uniformity index, five for fiber uniformity ratio, six for boll weight and seven for lint percent, for a total of 35 SSR markers, of which 11 markers were associated with more than one trait. Among marker-trait associations, 24 associations coincided with the previously reported quantitative trait loci (QTLs), the remainder were newly identified QTLs/genes. The QTLs identified in this study will potentially facilitate improvement of fiber yield and quality in the future cotton molecular breeding programs.

  2. A comparison of urban heat islands mapped using skin temperature, air temperature, and apparent temperature (Humidex), for the greater Vancouver area.

    PubMed

    Ho, Hung Chak; Knudby, Anders; Xu, Yongming; Hodul, Matus; Aminipouri, Mehdi

    2016-02-15

    Apparent temperature is more closely related to mortality during extreme heat events than other temperature variables, yet spatial epidemiology studies typically use skin temperature (also known as land surface temperature) to quantify heat exposure because it is relatively easy to map from satellite data. An empirical approach to map apparent temperature at the neighborhood scale, which relies on publicly available weather station observations and spatial data layers combined in a random forest regression model, was demonstrated for greater Vancouver, Canada. Model errors were acceptable (cross-validated RMSE=2.04 °C) and the resulting map of apparent temperature, calibrated for a typical hot summer day, corresponded well with past temperature research in the area. A comparison with field measurements as well as similar maps of skin temperature and air temperature revealed that skin temperature was poorly correlated with both air temperature (R(2)=0.38) and apparent temperature (R(2)=0.39). While the latter two were more similar (R(2)=0.87), apparent temperature was predicted to exceed air temperature by more than 5 °C in several urban areas as well as around the confluence of the Pitt and Fraser rivers. We conclude that skin temperature is not a suitable proxy for human heat exposure, and that spatial epidemiology studies could benefit from mapping apparent temperature, using an approach similar to the one reported here, to better quantify differences in heat exposure that exist across an urban landscape. Copyright © 2015 Elsevier B.V. All rights reserved.

  3. Using Concept Mapping to Improve Poor Readers' Understanding of Expository Text

    ERIC Educational Resources Information Center

    Morfidi, Eleni; Mikropoulos, Anastasios; Rogdaki, Aspasia

    2018-01-01

    The present study examined whether the use of concept mapping is more effective in teaching expository material in comparison to a traditional, lecture only, approach. Its objective was threefold. First, to determine if multimedia concept mapping produces differential learning outcomes compared to digital text-based concept mapping. Secondly, to…

  4. Comparison of spatial association approaches for landscape mapping of soil organic carbon stocks

    NASA Astrophysics Data System (ADS)

    Miller, B. A.; Koszinski, S.; Wehrhan, M.; Sommer, M.

    2015-03-01

    The distribution of soil organic carbon (SOC) can be variable at small analysis scales, but consideration of its role in regional and global issues demands the mapping of large extents. There are many different strategies for mapping SOC, among which is to model the variables needed to calculate the SOC stock indirectly or to model the SOC stock directly. The purpose of this research is to compare direct and indirect approaches to mapping SOC stocks from rule-based, multiple linear regression models applied at the landscape scale via spatial association. The final products for both strategies are high-resolution maps of SOC stocks (kg m-2), covering an area of 122 km2, with accompanying maps of estimated error. For the direct modelling approach, the estimated error map was based on the internal error estimations from the model rules. For the indirect approach, the estimated error map was produced by spatially combining the error estimates of component models via standard error propagation equations. We compared these two strategies for mapping SOC stocks on the basis of the qualities of the resulting maps as well as the magnitude and distribution of the estimated error. The direct approach produced a map with less spatial variation than the map produced by the indirect approach. The increased spatial variation represented by the indirect approach improved R2 values for the topsoil and subsoil stocks. Although the indirect approach had a lower mean estimated error for the topsoil stock, the mean estimated error for the total SOC stock (topsoil + subsoil) was lower for the direct approach. For these reasons, we recommend the direct approach to modelling SOC stocks be considered a more conservative estimate of the SOC stocks' spatial distribution.

  5. Comparison of spatial association approaches for landscape mapping of soil organic carbon stocks

    NASA Astrophysics Data System (ADS)

    Miller, B. A.; Koszinski, S.; Wehrhan, M.; Sommer, M.

    2014-11-01

    The distribution of soil organic carbon (SOC) can be variable at small analysis scales, but consideration of its role in regional and global issues demands the mapping of large extents. There are many different strategies for mapping SOC, among which are to model the variables needed to calculate the SOC stock indirectly or to model the SOC stock directly. The purpose of this research is to compare direct and indirect approaches to mapping SOC stocks from rule-based, multiple linear regression models applied at the landscape scale via spatial association. The final products for both strategies are high-resolution maps of SOC stocks (kg m-2), covering an area of 122 km2, with accompanying maps of estimated error. For the direct modelling approach, the estimated error map was based on the internal error estimations from the model rules. For the indirect approach, the estimated error map was produced by spatially combining the error estimates of component models via standard error propagation equations. We compared these two strategies for mapping SOC stocks on the basis of the qualities of the resulting maps as well as the magnitude and distribution of the estimated error. The direct approach produced a map with less spatial variation than the map produced by the indirect approach. The increased spatial variation represented by the indirect approach improved R2 values for the topsoil and subsoil stocks. Although the indirect approach had a lower mean estimated error for the topsoil stock, the mean estimated error for the total SOC stock (topsoil + subsoil) was lower for the direct approach. For these reasons, we recommend the direct approach to modelling SOC stocks be considered a more conservative estimate of the SOC stocks' spatial distribution.

  6. Chinese Mapped America Before 1430

    NASA Astrophysics Data System (ADS)

    Lee, Siu-Leung

    2018-05-01

    Qualitative and quantitative comparison of Kunyu Wanguo Quantu (the 1602 Chinese world map) and contemporaneous world maps by Mercator (1569), Ortelius (1570) , Mercator's Arctic map (1595), and Plancius (1594) in particular, reveals that the Chinese map is not an adapted copy from European maps. The Chinese world map includes geography of a pre-Renaissance Europe and American geography unknown to Europeans until more than 200 years after Ricci's death. Approximately 50 % of the place names, including those of America, have no equivalents on European maps. Chinese names descriptive of the geographic feature of California peninsula, Mount Ranier, the fjords of Alaska, Mount Denali, tidal bore near Anchorage are all accurate by latitudes. Chile and Peru are correct by relative longitude. Contrarily, the maps by Plancius and Mercator are erroneous and ambiguous on the geography of North and South America. The geography and text of the Chinese world map are consistent with a completion date of 1430, some sixty years before Christopher Columbus' first voyage. Martino Martini's Novus Atlas Sinensis (1655) is not a survey of his own but translated from Chinese sources, revealing that Ming China was capable of determining longitude/latitude on land and ocean, as well as spherical projection. In conclusion, information about American geography was transferred from China to Europe, not the reverse. The Chinese world map Kunyu Wanguo Quantu is the result of Chinese circumnavigation and survey, pioneering the Age of Exploration, overturning 600 years of misinterpreted history.

  7. Oral LD50 toxicity modeling and prediction of per- and polyfluorinated chemicals on rat and mouse.

    PubMed

    Bhhatarai, Barun; Gramatica, Paola

    2011-05-01

    Quantitative structure-activity relationship (QSAR) analyses were performed using the LD(50) oral toxicity data of per- and polyfluorinated chemicals (PFCs) on rodents: rat and mouse. PFCs are studied under the EU project CADASTER which uses the available experimental data for prediction and prioritization of toxic chemicals for risk assessment by using the in silico tools. The methodology presented here applies chemometrical analysis on the existing experimental data and predicts the toxicity of new compounds. QSAR analyses were performed on the available 58 mouse and 50 rat LD(50) oral data using multiple linear regression (MLR) based on theoretical molecular descriptors selected by genetic algorithm (GA). Training and prediction sets were prepared a priori from available experimental datasets in terms of structure and response. These sets were used to derive statistically robust and predictive (both internally and externally) models. The structural applicability domain (AD) of the models were verified on 376 per- and polyfluorinated chemicals including those in REACH preregistration list. The rat and mouse endpoints were predicted by each model for the studied compounds, and finally 30 compounds, all perfluorinated, were prioritized as most important for experimental toxicity analysis under the project. In addition, cumulative study on compounds within the AD of all four models, including two earlier published models on LC(50) rodent analysis was studied and the cumulative toxicity trend was observed using principal component analysis (PCA). The similarities and the differences observed in terms of descriptors and chemical/mechanistic meaning encoded by descriptors to prioritize the most toxic compounds are highlighted.

  8. Comparison of three orientation and mobility aids for individuals with blindness: Verbal description, audio-tactile map and audio-haptic map.

    PubMed

    Papadopoulos, Konstantinos; Koustriava, Eleni; Koukourikos, Panagiotis; Kartasidou, Lefkothea; Barouti, Marialena; Varveris, Asimis; Misiou, Marina; Zacharogeorga, Timoclia; Anastasiadis, Theocharis

    2017-01-01

    Disorientation and inability of wayfinding are phenomena with a great frequency for individuals with visual impairments during the process of travelling novel environments. Orientation and mobility aids could suggest important tools for the preparation of a more secure and cognitively mapped travelling. The aim of the present study was to examine if spatial knowledge structured after an individual with blindness had studied the map of an urban area that was delivered through a verbal description, an audio-tactile map or an audio-haptic map, could be used for detecting in the area specific points of interest. The effectiveness of the three aids with reference to each other was also examined. The results of the present study highlight the effectiveness of the audio-tactile and the audio-haptic maps as orientation and mobility aids, especially when these are compared to verbal descriptions.

  9. Accurate genomic predictions for BCWD resistance in rainbow trout are achieved using low-density SNP panels: Evidence that long-range LD is a major contributing factor.

    PubMed

    Vallejo, Roger L; Silva, Rafael M O; Evenhuis, Jason P; Gao, Guangtu; Liu, Sixin; Parsons, James E; Martin, Kyle E; Wiens, Gregory D; Lourenco, Daniela A L; Leeds, Timothy D; Palti, Yniv

    2018-06-05

    Previously accurate genomic predictions for Bacterial cold water disease (BCWD) resistance in rainbow trout were obtained using a medium-density single nucleotide polymorphism (SNP) array. Here, the impact of lower-density SNP panels on the accuracy of genomic predictions was investigated in a commercial rainbow trout breeding population. Using progeny performance data, the accuracy of genomic breeding values (GEBV) using 35K, 10K, 3K, 1K, 500, 300 and 200 SNP panels as well as a panel with 70 quantitative trait loci (QTL)-flanking SNP was compared. The GEBVs were estimated using the Bayesian method BayesB, single-step GBLUP (ssGBLUP) and weighted ssGBLUP (wssGBLUP). The accuracy of GEBVs remained high despite the sharp reductions in SNP density, and even with 500 SNP accuracy was higher than the pedigree-based prediction (0.50-0.56 versus 0.36). Furthermore, the prediction accuracy with the 70 QTL-flanking SNP (0.65-0.72) was similar to the panel with 35K SNP (0.65-0.71). Genomewide linkage disequilibrium (LD) analysis revealed strong LD (r 2  ≥ 0.25) spanning on average over 1 Mb across the rainbow trout genome. This long-range LD likely contributed to the accurate genomic predictions with the low-density SNP panels. Population structure analysis supported the hypothesis that long-range LD in this population may be caused by admixture. Results suggest that lower-cost, low-density SNP panels can be used for implementing genomic selection for BCWD resistance in rainbow trout breeding programs. © 2018 The Authors. This article is a U.S. Government work and is in the public domain in the USA. Journal of Animal Breeding and Genetics published by Blackwell Verlag GmbH.

  10. Piloting a manualised weight management programme (Shape Up-LD) for overweight and obese persons with mild-moderate learning disabilities: study protocol for a pilot randomised controlled trial.

    PubMed

    Beeken, Rebecca J; Spanos, Dimitrios; Fovargue, Sally; Hunter, Rachael; Omar, Rumana; Hassiotis, Angela; King, Michael; Wardle, Jane; Croker, Helen

    2013-03-12

    National obesity rates have dramatically risen over the last decade. Being obese significantly reduces life expectancy, increases the risk of a range of diseases, and compromises quality of life. Costs to both the National Health Service and society are high. An increased prevalence of obesity in people with learning disabilities has been demonstrated. The consequences of obesity are particularly relevant to people with learning disabilities who are already confronted by health and social inequalities. In order to provide healthcare for all, and ensure equality of treatment for people with learning disabilities, services must be developed specifically with this population in mind. The aim of this project is to pilot the evaluation of a manualised weight management programme for overweight and obese persons with mild-moderate learning disabilities (Shape Up-LD). An individually randomised, controlled pilot trial in 60 overweight and obese (body mass index ≥ 25) adults (age ≥ 18) with mild-moderate learning disabilities and their carers will be carried out, comparing "Shape Up-LD" with usual care. The manualised Shape Up-LD intervention will involve 12 weekly sessions, which include healthy eating messages, advice on physical activity and use of behaviour change techniques to help people manage their weight. Assessments of participants will be conducted at baseline, 12 weeks and 6 months. Service users and their carers and service providers will also give their perspectives on the experience of Shape Up-LD in qualitative interviews at 12 weeks. Feasibility outcomes will include recruitment rates, loss to follow-up, compliance rates, completion rates, collection of information for a cost-effectiveness analysis and an estimation of the treatment effect on weight. The findings from this study will inform our preparation for a definitive randomised controlled trial to test the efficacy of the programme with respect to weight loss and maintenance in this population

  11. A Comparison of Mental Health Care Systems in Northern and Southern Europe: A Service Mapping Study.

    PubMed

    Sadeniemi, Minna; Almeda, Nerea; Salinas-Pérez, Jose A; Gutiérrez-Colosía, Mencía R; García-Alonso, Carlos; Ala-Nikkola, Taina; Joffe, Grigori; Pirkola, Sami; Wahlbeck, Kristian; Cid, Jordi; Salvador-Carulla, Luis

    2018-05-31

    Mental health services (MHS) have gone through vast changes during the last decades, shifting from hospital to community-based care. Developing the optimal balance and use of resources requires standard comparisons of mental health care systems across countries. This study aimed to compare the structure, personnel resource allocation, and the productivity of the MHS in two benchmark health districts in a Nordic welfare state and a southern European, family-centered country. The study is part of the REFINEMENT (Research on Financing Systems' Effect on the Quality of Mental Health Care) project. The study areas were the Helsinki and Uusimaa region in Finland and the Girona region in Spain. The MHS were mapped by using the DESDE-LTC (Description and Evaluation of Services and Directories for Long Term Care) tool. There were 6.7 times more personnel resources in the MHS in Helsinki and Uusimaa than in Girona. The resource allocation was more residential-service-oriented in Helsinki and Uusimaa. The difference in mental health personnel resources is not explained by the respective differences in the need for MHS among the population. It is important to make a standard comparison of the MHS for supporting policymaking and to ensure equal access to care across European countries.

  12. Validation of ET maps derived from MODIS imagery

    NASA Astrophysics Data System (ADS)

    Hong, S.; Hendrickx, J. M.; Borchers, B.

    2005-12-01

    In previous work we have used the New Mexico Tech implementation of the Surface Energy Balance Algorithm for Land (SEBAL-NMT) for the generation of ET maps from LandSat imagery. Comparison of these SEBAL ET estimates versus ET ground measurements using eddy covariance showed satisfactory agreement between the two methods in the heterogeneous arid landscape of the Middle Rio Grande Basin. The objective of this study is to validate SEBAL ET estimates obtained from MODIS imagery. The use of MODIS imagery is attractive since MODIS images are available at a much higher frequency than LandSat images at no cost to the user. MODIS images have a pixel size in the thermal band of 1000x1000 m which is much coarser than the 60x60 m pixel size of LandSat 7. This large pixel size precludes the use of eddy covariance measurements for validation of ET maps derived from MODIS imagery since the eddy covariance measurement is not representative of a 1000x1000 m MODIS pixel. In our experience, a typical foot print of an ET rate measured by eddy covariance on a clear day in New Mexico around 11 am is less than then thousand square meters or two orders of magnitude smaller than a MODIS thermal pixel. Therefore, we have validated ET maps derived from MODIS imagery by comparison with up-scaled ET maps derived from LandSat imagery. The results of our study demonstrate: (1) There is good agreement between ET maps derived from LandSat and MODIS images; (2) Up-scaling of LandSat ET maps over the Middle Rio Grande Basin produces ET maps that are very similar to ET maps directly derived from MODIS images; (3) ET maps derived from free MODIS imagery using SEBAL-NMT can provide reliable regional ET information for water resource managers.

  13. SSR-enriched genetic linkage maps of bermudagrass (Cynodon dactylon × transvaalensis), and their comparison with allied plant genomes.

    PubMed

    Khanal, Sameer; Kim, Changsoo; Auckland, Susan A; Rainville, Lisa K; Adhikari, Jeevan; Schwartz, Brian M; Paterson, Andrew H

    2017-04-01

    We report SSR-enriched genetic maps of bermudagrass that: (1) reveal partial residual polysomic inheritance in the tetraploid species, and (2) provide insights into the evolution of chloridoid genomes. This study describes genetic linkage maps of two bermudagrass species, Cynodon dactylon (T89) and Cynodon transvaalensis (T574), that integrate heterologous microsatellite markers from sugarcane into frameworks built with single-dose restriction fragments (SDRFs). A maximum likelihood approach was used to construct two separate parental maps from a population of 110 F 1 progeny of a cross between the two parents. The T89 map is based on 291 loci on 34 cosegregating groups (CGs), with an average marker spacing of 12.5 cM. The T574 map is based on 125 loci on 14 CGs, with an average marker spacing of 10.7 cM. Six T89 and one T574 CG(s) deviated from disomic inheritance. Furthermore, marker segregation data and linkage phase analysis revealed partial residual polysomic inheritance in T89, suggesting that common bermudagrass is undergoing diploidization following whole genome duplication (WGD). Twenty-six T89 CGs were coalesced into 9 homo(eo)logous linkage groups (LGs), while 12 T574 CGs were assembled into 9 LGs, both putatively representing the basic chromosome complement (x = 9) of the species. Eight T89 and two T574 CGs remain unassigned. The marker composition of bermudagrass ancestral chromosomes was inferred by aligning T89 and T574 homologs, and used in comparisons to sorghum and rice genome sequences based on 108 and 91 significant blast hits, respectively. Two nested chromosome fusions (NCFs) shared by two other chloridoids (i.e., zoysiagrass and finger millet) and at least three independent translocation events were evident during chromosome number reduction from 14 in the polyploid common ancestor of Poaceae to 9 in Cynodon.

  14. Estimation of reliability of predictions and model applicability domain evaluation in the analysis of acute toxicity (LD50).

    PubMed

    Sazonovas, A; Japertas, P; Didziapetris, R

    2010-01-01

    This study presents a new type of acute toxicity (LD(50)) prediction that enables automated assessment of the reliability of predictions (which is synonymous with the assessment of the Model Applicability Domain as defined by the Organization for Economic Cooperation and Development). Analysis involved nearly 75,000 compounds from six animal systems (acute rat toxicity after oral and intraperitoneal administration; acute mouse toxicity after oral, intraperitoneal, intravenous, and subcutaneous administration). Fragmental Partial Least Squares (PLS) with 100 bootstraps yielded baseline predictions that were automatically corrected for non-linear effects in local chemical spaces--a combination called Global, Adjusted Locally According to Similarity (GALAS) modelling methodology. Each prediction obtained in this manner is provided with a reliability index value that depends on both compound's similarity to the training set (that accounts for similar trends in LD(50) variations within multiple bootstraps) and consistency of experimental results with regard to the baseline model in the local chemical environment. The actual performance of the Reliability Index (RI) was proven by its good (and uniform) correlations with Root Mean Square Error (RMSE) in all validation sets, thus providing quantitative assessment of the Model Applicability Domain. The obtained models can be used for compound screening in the early stages of drug development and prioritization for experimental in vitro testing or later in vivo animal acute toxicity studies.

  15. Soil maps as data input for soil erosion models: errors related to map scales

    NASA Astrophysics Data System (ADS)

    van Dijk, Paul; Sauter, Joëlle; Hofstetter, Elodie

    2010-05-01

    Soil erosion rates depend in many ways on soil and soil surface characteristics which vary in space and in time. To account for spatial variations of soil features, most distributed soil erosion models require data input derived from soil maps. Ideally, the level of spatial detail contained in the applied soil map should correspond to the objective of the modelling study. However, often the model user has only one soil map available which is then applied without questioning its suitability. The present study seeks to determine in how far soil map scale can be a source of error in erosion model output. The study was conducted on two different spatial scales, with for each of them a convenient soil erosion model: a) the catchment scale using the physically-based Limbourg Soil Erosion Model (LISEM), and b) the regional scale using the decision-tree expert model MESALES. The suitability of the applied soil map was evaluated with respect to an imaginary though realistic study objective for both models: the definition of erosion control measures at strategic locations at the catchment scale; the identification of target areas for the definition of control measures strategies at the regional scale. Two catchments were selected to test the sensitivity of LISEM to the spatial detail contained in soil maps: one catchment with relatively little contrast in soil texture, dominated by loess-derived soil (south of the Alsace), and one catchment with strongly contrasted soils at the limit between the Alsatian piedmont and the loess-covered hills of the Kochersberg. LISEM was run for both catchments using different soil maps ranging in scale from 1/25 000 to 1/100 000 to derive soil related input parameters. The comparison of the output differences was used to quantify the map scale impact on the quality of the model output. The sensitivity of MESALES was tested on the Haut-Rhin county for which two soil maps are available for comparison: 1/50 000 and 1/100 000. The order of

  16. A Comparison of Maps and Power Spectra Determined from South Pole Telescope and Planck Data

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

    Hou, Z.; Aylor, K.; Benson, B. A.

    We study the consistency of 150 GHz data from the South Pole Telescope (SPT) and 143 GHz data from the \\textit{Planck} satellite over the 2540more » $$\\text{deg}^2$$ patch of sky covered by the SPT-SZ survey. We first visually compare the maps and find that the map residuals appear consistent with noise after we account for differences in angular resolution and filtering. To make a more quantitative comparison, we calculate (1) the cross-spectrum between two independent halves of SPT 150 GHz data, (2) the cross-spectrum between two independent halves of \\textit{Planck} 143 GHz data, and (3) the cross-spectrum between SPT 150 GHz and \\textit{Planck} 143 GHz data. We find the three cross-spectra are well-fit (PTE = 0.30) by the null hypothesis in which both experiments have measured the same sky map up to a single free parameter characterizing the relative calibration between the two. As a by-product of this analysis, we improve the calibration of SPT data by nearly an order of magnitude, from 2.6\\% to 0.3\\% in power; the best-fit power calibration factor relative to the most recent published SPT calibration is $$1.0174 \\pm 0.0033$$. Finally, we compare all three cross-spectra to the full-sky \\textit{Planck} $$143 \\times 143$$ power spectrum and find a hint ($$\\sim$$1.5$$\\sigma$$) for differences in the power spectrum of the SPT-SZ footprint and the full-sky power spectrum, which we model and fit as a power law in the spectrum. The best-fit value of this tilt is consistent between the three cross-spectra in the SPT-SZ footprint, implying that the source of this tilt---assuming it is real---is a sample variance fluctuation in the SPT-SZ region relative to the full sky. Despite the precision of our tests, we find no evidence for systematic errors in either data set. The consistency of cosmological parameters derived from these datasets is discussed in a companion paper.« less

  17. A Comparison of Maps and Power Spectra Determined from South Pole Telescope and Planck Data

    DOE PAGES

    Hou, Z.; Aylor, K.; Benson, B. A.; ...

    2018-01-17

    We study the consistency of 150 GHz data from the South Pole Telescope (SPT) and 143 GHz data from the \\textit{Planck} satellite over the 2540more » $$\\text{deg}^2$$ patch of sky covered by the SPT-SZ survey. We first visually compare the maps and find that the map residuals appear consistent with noise after we account for differences in angular resolution and filtering. To make a more quantitative comparison, we calculate (1) the cross-spectrum between two independent halves of SPT 150 GHz data, (2) the cross-spectrum between two independent halves of \\textit{Planck} 143 GHz data, and (3) the cross-spectrum between SPT 150 GHz and \\textit{Planck} 143 GHz data. We find the three cross-spectra are well-fit (PTE = 0.30) by the null hypothesis in which both experiments have measured the same sky map up to a single free parameter characterizing the relative calibration between the two. As a by-product of this analysis, we improve the calibration of SPT data by nearly an order of magnitude, from 2.6\\% to 0.3\\% in power; the best-fit power calibration factor relative to the most recent published SPT calibration is $$1.0174 \\pm 0.0033$$. Finally, we compare all three cross-spectra to the full-sky \\textit{Planck} $$143 \\times 143$$ power spectrum and find a hint ($$\\sim$$1.5$$\\sigma$$) for differences in the power spectrum of the SPT-SZ footprint and the full-sky power spectrum, which we model and fit as a power law in the spectrum. The best-fit value of this tilt is consistent between the three cross-spectra in the SPT-SZ footprint, implying that the source of this tilt---assuming it is real---is a sample variance fluctuation in the SPT-SZ region relative to the full sky. Despite the precision of our tests, we find no evidence for systematic errors in either data set. The consistency of cosmological parameters derived from these datasets is discussed in a companion paper.« less

  18. Wildland-urban interface maps vary with purpose and context

    USGS Publications Warehouse

    Stewart, S.I.; Wilmer, B.; Hammer, R.B.; Aplet, G.H.; Hawbaker, T.J.; Miller, C.; Radeloff, V.C.

    2009-01-01

    Maps of the wildland-urban interface (WUI) are both policy tools and powerful visual images. Although the growing number of WUI maps serve similar purposes, this article indicates that WUI maps derived from the same data sets can differ in important ways related to their original intended application. We discuss the use of ancillary data in modifying census data to improve WUI maps and offer a cautionary note about this practice. A comparison of two WUI mapping approaches suggests that no single map is "best" because users' needs vary. The analysts who create maps are responsible for ensuring that users understand their purpose, data, and methods; map users are responsible for paying attention to these features and using each map accordingly. These considerations should apply to any analysis but are especially important to analyses of the WUI on which policy decisions will be made.

  19. Protonation of benzimidazoles and 1,2,3-benzotriazoles Solid-state linear dichroic infrared (IR-LD) spectral analysis and ab initio calculations

    NASA Astrophysics Data System (ADS)

    Ivanova, Bojidarka B.; Pindeva, Liliya I.

    2006-09-01

    IR-LD spectroscopic data obtained by the orientated solid samples as a suspension in a nematic liquid crystal of 1-hydroxy-1,2,3-benzotriazole, 2-methyl-, 2-acetonitrilebenzimidazoles and their protonated salts have been presented. The stereo-structures have been predicted and compared with theoretical ones. The IR-characteristic bands assignments of all molecule systems have been achieved.

  20. Optimal Mass Transport for Shape Matching and Comparison

    PubMed Central

    Su, Zhengyu; Wang, Yalin; Shi, Rui; Zeng, Wei; Sun, Jian; Luo, Feng; Gu, Xianfeng

    2015-01-01

    Surface based 3D shape analysis plays a fundamental role in computer vision and medical imaging. This work proposes to use optimal mass transport map for shape matching and comparison, focusing on two important applications including surface registration and shape space. The computation of the optimal mass transport map is based on Monge-Brenier theory, in comparison to the conventional method based on Monge-Kantorovich theory, this method significantly improves the efficiency by reducing computational complexity from O(n2) to O(n). For surface registration problem, one commonly used approach is to use conformal map to convert the shapes into some canonical space. Although conformal mappings have small angle distortions, they may introduce large area distortions which are likely to cause numerical instability thus resulting failures of shape analysis. This work proposes to compose the conformal map with the optimal mass transport map to get the unique area-preserving map, which is intrinsic to the Riemannian metric, unique, and diffeomorphic. For shape space study, this work introduces a novel Riemannian framework, Conformal Wasserstein Shape Space, by combing conformal geometry and optimal mass transport theory. In our work, all metric surfaces with the disk topology are mapped to the unit planar disk by a conformal mapping, which pushes the area element on the surface to a probability measure on the disk. The optimal mass transport provides a map from the shape space of all topological disks with metrics to the Wasserstein space of the disk and the pullback Wasserstein metric equips the shape space with a Riemannian metric. We validate our work by numerous experiments and comparisons with prior approaches and the experimental results demonstrate the efficiency and efficacy of our proposed approach. PMID:26440265

  1. Bedmap2; Mapping, visualizing and communicating the Antarctic sub-glacial environment.

    NASA Astrophysics Data System (ADS)

    Fretwell, Peter; Pritchard, Hamish

    2013-04-01

    Bedmap2; Mapping, visualizing and communicating the Antarctic sub-glacial environment. The Bedmap2 project has been a large cooperative effort to compile, model, map and visualize the ice-rock interface beneath the Antarctic ice sheet. Here we present the final output of that project; the Bedmap2 printed map. The map is an A1, double sided print, showing 2d and 3d visualizations of the dataset. It includes scientific interpretations, cross sections and comparisons with other areas. Paper copies of the colour double sided map will be freely distributed at this session.

  2. Combined noninvasive language mapping by navigated transcranial magnetic stimulation and functional MRI and its comparison with direct cortical stimulation.

    PubMed

    Ille, Sebastian; Sollmann, Nico; Hauck, Theresa; Maurer, Stefanie; Tanigawa, Noriko; Obermueller, Thomas; Negwer, Chiara; Droese, Doris; Zimmer, Claus; Meyer, Bernhard; Ringel, Florian; Krieg, Sandro M

    2015-07-01

    Repetitive navigated transcranial magnetic stimulation (rTMS) is now increasingly used for preoperative language mapping in patients with lesions in language-related areas of the brain. Yet its correlation with intraoperative direct cortical stimulation (DCS) has to be improved. To increase rTMS's specificity and positive predictive value, the authors aim to provide thresholds for rTMS's positive language areas. Moreover, they propose a protocol for combining rTMS with functional MRI (fMRI) to combine the strength of both methods. The authors performed multimodal language mapping in 35 patients with left-sided perisylvian lesions by using rTMS, fMRI, and DCS. The rTMS mappings were conducted with a picture-to-trigger interval (PTI, time between stimulus presentation and stimulation onset) of either 0 or 300 msec. The error rates (ERs; that is, the number of errors per number of stimulations) were calculated for each region of the cortical parcellation system (CPS). Subsequently, the rTMS mappings were analyzed through different error rate thresholds (ERT; that is, the ER at which a CPS region was defined as language positive in terms of rTMS), and the 2-out-of-3 rule (a stimulation site was defined as language positive in terms of rTMS if at least 2 out of 3 stimulations caused an error). As a second step, the authors combined the results of fMRI and rTMS in a predefined protocol of combined noninvasive mapping. To validate this noninvasive protocol, they correlated its results to DCS during awake surgery. The analysis by different rTMS ERTs obtained the highest correlation regarding sensitivity and a low rate of false positives for the ERTs of 15%, 20%, 25%, and the 2-out-of-3 rule. However, when comparing the combined fMRI and rTMS results with DCS, the authors observed an overall specificity of 83%, a positive predictive value of 51%, a sensitivity of 98%, and a negative predictive value of 95%. In comparison with fMRI, rTMS is a more sensitive but less specific

  3. Landslide susceptibility mapping using frequency ratio, logistic regression, artificial neural networks and their comparison: A case study from Kat landslides (Tokat—Turkey)

    NASA Astrophysics Data System (ADS)

    Yilmaz, Işık

    2009-06-01

    The purpose of this study is to compare the landslide susceptibility mapping methods of frequency ratio (FR), logistic regression and artificial neural networks (ANN) applied in the Kat County (Tokat—Turkey). Digital elevation model (DEM) was first constructed using GIS software. Landslide-related factors such as geology, faults, drainage system, topographical elevation, slope angle, slope aspect, topographic wetness index (TWI) and stream power index (SPI) were used in the landslide susceptibility analyses. Landslide susceptibility maps were produced from the frequency ratio, logistic regression and neural networks models, and they were then compared by means of their validations. The higher accuracies of the susceptibility maps for all three models were obtained from the comparison of the landslide susceptibility maps with the known landslide locations. However, respective area under curve (AUC) values of 0.826, 0.842 and 0.852 for frequency ratio, logistic regression and artificial neural networks showed that the map obtained from ANN model is more accurate than the other models, accuracies of all models can be evaluated relatively similar. The results obtained in this study also showed that the frequency ratio model can be used as a simple tool in assessment of landslide susceptibility when a sufficient number of data were obtained. Input process, calculations and output process are very simple and can be readily understood in the frequency ratio model, however logistic regression and neural networks require the conversion of data to ASCII or other formats. Moreover, it is also very hard to process the large amount of data in the statistical package.

  4. A statistical approach for validating eSOTER and digital soil maps in front of traditional soil maps

    NASA Astrophysics Data System (ADS)

    Bock, Michael; Baritz, Rainer; Köthe, Rüdiger; Melms, Stephan; Günther, Susann

    2015-04-01

    During the European research project eSOTER, three different Digital Soil Maps (DSM) were developed for the pilot area Chemnitz 1:250,000 (FP7 eSOTER project, grant agreement nr. 211578). The core task of the project was to revise the SOTER method for the interpretation of soil and terrain data. It was one of the working hypothesis that eSOTER does not only provide terrain data with typical soil profiles, but that the new products actually perform like a conceptual soil map. The three eSOTER maps for the pilot area considerably differed in spatial representation and content of soil classes. In this study we compare the three eSOTER maps against existing reconnaissance soil maps keeping in mind that traditional soil maps have many subjective issues and intended bias regarding the overestimation and emphasize of certain features. Hence, a true validation of the proper representation of modeled soil maps is hardly possible; rather a statistical comparison between modeled and empirical approaches is possible. If eSOTER data represent conceptual soil maps, then different eSOTER, DSM and conventional maps from various sources and different regions could be harmonized towards consistent new data sets for large areas including the whole European continent. One of the eSOTER maps has been developed closely to the traditional SOTER method: terrain classification data (derived from SRTM DEM) were combined with lithology data (re-interpreted geological map); the corresponding terrain units were then extended with soil information: a very dense regional soil profile data set was used to define soil mapping units based on a statistical grouping of terrain units. The second map is a pure DSM map using continuous terrain parameters instead of terrain classification; radiospectrometric data were used to supplement parent material information from geology maps. The classification method Random Forest was used. The third approach predicts soil diagnostic properties based on

  5. Visual map and instruction-based bicycle navigation: a comparison of effects on behaviour.

    PubMed

    de Waard, Dick; Westerhuis, Frank; Joling, Danielle; Weiland, Stella; Stadtbäumer, Ronja; Kaltofen, Leonie

    2017-09-01

    Cycling with a classic paper map was compared with navigating with a moving map displayed on a smartphone, and with auditory, and visual turn-by-turn route guidance. Spatial skills were found to be related to navigation performance, however only when navigating from a paper or electronic map, not with turn-by-turn (instruction based) navigation. While navigating, 25% of the time cyclists fixated at the devices that present visual information. Navigating from a paper map required most mental effort and both young and older cyclists preferred electronic over paper map navigation. In particular a turn-by-turn dedicated guidance device was favoured. Visual maps are in particular useful for cyclists with higher spatial skills. Turn-by-turn information is used by all cyclists, and it is useful to make these directions available in all devices. Practitioner Summary: Electronic navigation devices are preferred over a paper map. People with lower spatial skills benefit most from turn-by-turn guidance information, presented either auditory or on a dedicated device. People with higher spatial skills perform well with all devices. It is advised to keep in mind that all users benefit from turn-by-turn information when developing a navigation device for cyclists.

  6. Evaluation of multiple comparison correction procedures in drug assessment studies using LORETA maps.

    PubMed

    Alonso, Joan Francesc; Romero, Sergio; Mañanas, Miguel Ángel; Rojas, Mónica; Riba, Jordi; Barbanoj, Manel José

    2015-10-01

    The identification of the brain regions involved in the neuropharmacological action is a potential procedure for drug development. These regions are commonly determined by the voxels showing significant statistical differences after comparing placebo-induced effects with drug-elicited effects. LORETA is an electroencephalography (EEG) source imaging technique frequently used to identify brain structures affected by the drug. The aim of the present study was to evaluate different methods for the correction of multiple comparisons in the LORETA maps. These methods which have been commonly used in neuroimaging and also simulated studies have been applied on a real case of pharmaco-EEG study where the effects of increasing benzodiazepine doses on the central nervous system measured by LORETA were investigated. Data consisted of EEG recordings obtained from nine volunteers who received single oral doses of alprazolam 0.25, 0.5, and 1 mg, and placebo in a randomized crossover double-blind design. The identification of active regions was highly dependent on the selected multiple test correction procedure. The combined criteria approach known as cluster mass was useful to reveal that increasing drug doses led to higher intensity and spread of the pharmacologically induced changes in intracerebral current density.

  7. Mapping and monitoring carbon stocks with satellite observations: a comparison of methods.

    PubMed

    Goetz, Scott J; Baccini, Alessandro; Laporte, Nadine T; Johns, Tracy; Walker, Wayne; Kellndorfer, Josef; Houghton, Richard A; Sun, Mindy

    2009-03-25

    Mapping and monitoring carbon stocks in forested regions of the world, particularly the tropics, has attracted a great deal of attention in recent years as deforestation and forest degradation account for up to 30% of anthropogenic carbon emissions, and are now included in climate change negotiations. We review the potential for satellites to measure carbon stocks, specifically aboveground biomass (AGB), and provide an overview of a range of approaches that have been developed and used to map AGB across a diverse set of conditions and geographic areas. We provide a summary of types of remote sensing measurements relevant to mapping AGB, and assess the relative merits and limitations of each. We then provide an overview of traditional techniques of mapping AGB based on ascribing field measurements to vegetation or land cover type classes, and describe the merits and limitations of those relative to recent data mining algorithms used in the context of an approach based on direct utilization of remote sensing measurements, whether optical or lidar reflectance, or radar backscatter. We conclude that while satellite remote sensing has often been discounted as inadequate for the task, attempts to map AGB without satellite imagery are insufficient. Moreover, the direct remote sensing approach provided more coherent maps of AGB relative to traditional approaches. We demonstrate this with a case study focused on continental Africa and discuss the work in the context of reducing uncertainty for carbon monitoring and markets.

  8. Topological visual mapping in robotics.

    PubMed

    Romero, Anna; Cazorla, Miguel

    2012-08-01

    A key problem in robotics is the construction of a map from its environment. This map could be used in different tasks, like localization, recognition, obstacle avoidance, etc. Besides, the simultaneous location and mapping (SLAM) problem has had a lot of interest in the robotics community. This paper presents a new method for visual mapping, using topological instead of metric information. For that purpose, we propose prior image segmentation into regions in order to group the extracted invariant features in a graph so that each graph defines a single region of the image. Although others methods have been proposed for visual SLAM, our method is complete, in the sense that it makes all the process: it presents a new method for image matching; it defines a way to build the topological map; and it also defines a matching criterion for loop-closing. The matching process will take into account visual features and their structure using the graph transformation matching (GTM) algorithm, which allows us to process the matching and to remove out the outliers. Then, using this image comparison method, we propose an algorithm for constructing topological maps. During the experimentation phase, we will test the robustness of the method and its ability constructing topological maps. We have also introduced new hysteresis behavior in order to solve some problems found building the graph.

  9. Improving Protocols for Protein Mapping through Proper Comparison to Crystallography Data

    PubMed Central

    Lexa, Katrina W.; Carlson, Heather A.

    2013-01-01

    Computational approaches to fragment-based drug design (FBDD) can complement experiments and facilitate the identification of potential hot spots along the protein surface. However, the evaluation of computational methods for mapping binding sites frequently focuses upon the ability to reproduce crystallographic coordinates to within a low RMSD threshold. This dependency on the deposited coordinate data overlooks the original electron density from the experiment, thus techniques may be developed based upon subjective - or even erroneous - atomic coordinates. This can become a significant drawback in applications to systems where the location of hot spots is unknown. Based on comparison to crystallographic density, we previously showed that mixed-solvent molecular dynamics (MixMD) accurately identifies the active site for HEWL, with acetonitrile as an organic solvent. Here, we concentrated on the influence of protic solvent on simulation and refined the optimal MixMD approach for extrapolation of the method to systems without established sites. Our results establish an accurate approach for comparing simulations to experiment. We have outlined the most efficient strategy for MixMD, based on simulation length and number of runs. The development outlined here makes MixMD a robust method which should prove useful across a broad range of target structures. Lastly, our results with MixMD match experimental data so well that consistency between simulations and density may be a useful way to aid the identification of probes vs waters during the refinement of future MSCS crystallographic structures. PMID:23327200

  10. Quantitative genetic-interaction mapping in mammalian cells

    PubMed Central

    Roguev, Assen; Talbot, Dale; Negri, Gian Luca; Shales, Michael; Cagney, Gerard; Bandyopadhyay, Sourav; Panning, Barbara; Krogan, Nevan J

    2013-01-01

    Mapping genetic interactions (GIs) by simultaneously perturbing pairs of genes is a powerful tool for understanding complex biological phenomena. Here we describe an experimental platform for generating quantitative GI maps in mammalian cells using a combinatorial RNA interference strategy. We performed ~11,000 pairwise knockdowns in mouse fibroblasts, focusing on 130 factors involved in chromatin regulation to create a GI map. Comparison of the GI and protein-protein interaction (PPI) data revealed that pairs of genes exhibiting positive GIs and/or similar genetic profiles were predictive of the corresponding proteins being physically associated. The mammalian GI map identified pathways and complexes but also resolved functionally distinct submodules within larger protein complexes. By integrating GI and PPI data, we created a functional map of chromatin complexes in mouse fibroblasts, revealing that the PAF complex is a central player in the mammalian chromatin landscape. PMID:23407553

  11. Construction of Ultradense Linkage Maps with Lep-MAP2: Stickleback F2 Recombinant Crosses as an Example

    PubMed Central

    Rastas, Pasi; Calboli, Federico C. F.; Guo, Baocheng; Shikano, Takahito; Merilä, Juha

    2016-01-01

    High-density linkage maps are important tools for genome biology and evolutionary genetics by quantifying the extent of recombination, linkage disequilibrium, and chromosomal rearrangements across chromosomes, sexes, and populations. They provide one of the best ways to validate and refine de novo genome assemblies, with the power to identify errors in assemblies increasing with marker density. However, assembly of high-density linkage maps is still challenging due to software limitations. We describe Lep-MAP2, a software for ultradense genome-wide linkage map construction. Lep-MAP2 can handle various family structures and can account for achiasmatic meiosis to gain linkage map accuracy. Simulations show that Lep-MAP2 outperforms other available mapping software both in computational efficiency and accuracy. When applied to two large F2-generation recombinant crosses between two nine-spined stickleback (Pungitius pungitius) populations, it produced two high-density (∼6 markers/cM) linkage maps containing 18,691 and 20,054 single nucleotide polymorphisms. The two maps showed a high degree of synteny, but female maps were 1.5–2 times longer than male maps in all linkage groups, suggesting genome-wide recombination suppression in males. Comparison with the genome sequence of the three-spined stickleback (Gasterosteus aculeatus) revealed a high degree of interspecific synteny with a low frequency (<5%) of interchromosomal rearrangements. However, a fairly large (ca. 10 Mb) translocation from autosome to sex chromosome was detected in both maps. These results illustrate the utility and novel features of Lep-MAP2 in assembling high-density linkage maps, and their usefulness in revealing evolutionarily interesting properties of genomes, such as strong genome-wide sex bias in recombination rates. PMID:26668116

  12. An analysis of the impact of cabin floor angle restrictions on L/D for a typical supersonic transport

    NASA Technical Reports Server (NTRS)

    Radkey, R. L.

    1974-01-01

    High floor angles at cruise have been identified as a significant problem facing airline and public acceptance of a supersonic transport. In order to explore the relationship between cruise performances and floor angle, four related wing-fuselage design and integration studies have been conducted. The studies were: (1) a fuselage camber study in which perturbations in the fuselage camber distribution were examined with a baseline wing, (2) a wing optimization study in which wings were optimized for minimum drag at C sub L's less than the design C sub L. These wings were optimized as wing planform camber surfaces alone and evaluated with a baseline fuselage, (3) a second wing optimization study in which wings were optimized for minimum drag at C sub L's less than the design C sub L but for this study the wings were optimized in the presence of the baseline fuselage, and (4) a third wing optimization study in which wings were optimized for minmum drag subject to C sub M constraints designed to produce more positive C sub MO's, thereby reducing trim drag. The studies indicated that it was not possible to both improve the aircraft cruise L/D and substantially reduce the cruise floor angle. The studies did indicate that the cruise floor angle could be reduced by reducing the fuselage incidence relative to the wing, but the reduction in floor angle was accompanied by a substantial reduction in L/D.

  13. Learning Strategies: Secondary LD Students in the Mainstream.

    ERIC Educational Resources Information Center

    D'Antoni, Alice; And Others

    The paper presents four learning strategy techniques--the SQ3R method of study, the Multipass Strategy, the Advanced Study Guide Technique, and Cognitive Mapping--for use with secondary level learning disabled students. The SQ3R method involves the five steps of survey, question, read, recite, and review. An adaption of the SQ3R method, the…

  14. Fitting Multimeric Protein Complexes into Electron Microscopy Maps Using 3D Zernike Descriptors

    PubMed Central

    Esquivel-Rodríguez, Juan; Kihara, Daisuke

    2012-01-01

    A novel computational method for fitting high-resolution structures of multiple proteins into a cryoelectron microscopy map is presented. The method named EMLZerD generates a pool of candidate multiple protein docking conformations of component proteins, which are later compared with a provided electron microscopy (EM) density map to select the ones that fit well into the EM map. The comparison of docking conformations and the EM map is performed using the 3D Zernike descriptor (3DZD), a mathematical series expansion of three-dimensional functions. The 3DZD provides a unified representation of the surface shape of multimeric protein complex models and EM maps, which allows a convenient, fast quantitative comparison of the three dimensional structural data. Out of 19 multimeric complexes tested, near native complex structures with a root mean square deviation of less than 2.5 Å were obtained for 14 cases while medium range resolution structures with correct topology were computed for the additional 5 cases. PMID:22417139

  15. Fitting multimeric protein complexes into electron microscopy maps using 3D Zernike descriptors.

    PubMed

    Esquivel-Rodríguez, Juan; Kihara, Daisuke

    2012-06-14

    A novel computational method for fitting high-resolution structures of multiple proteins into a cryoelectron microscopy map is presented. The method named EMLZerD generates a pool of candidate multiple protein docking conformations of component proteins, which are later compared with a provided electron microscopy (EM) density map to select the ones that fit well into the EM map. The comparison of docking conformations and the EM map is performed using the 3D Zernike descriptor (3DZD), a mathematical series expansion of three-dimensional functions. The 3DZD provides a unified representation of the surface shape of multimeric protein complex models and EM maps, which allows a convenient, fast quantitative comparison of the three-dimensional structural data. Out of 19 multimeric complexes tested, near native complex structures with a root-mean-square deviation of less than 2.5 Å were obtained for 14 cases while medium range resolution structures with correct topology were computed for the additional 5 cases.

  16. Temporal analysis and spatial mapping of Lymantria dispar nuclear polyhedrosis virus transcripts and in-vitro translation products

    Treesearch

    James M. Slavicek; Nancy Hayes-Plazolles

    1991-01-01

    The Lymantria dispar nuclear polyhedrosis virus LdNPV) is being used as a biopesticide against the gypsy moth. We are attempting to enhance the potency of the LdNPV through recombinant DNA technology. As a prerequisite to genetic manipulation, we have characterized LdNPV gene expression in cell culture through the generation of transcription and...

  17. Long-term comparison of Kuparuk Watershed active layer maps, northern Alaska, USA

    NASA Astrophysics Data System (ADS)

    Nyland, K. E.; Queen, C.; Nelson, F. E.; Shiklomanov, N. I.; Streletskiy, D. A.; Klene, A. E.

    2017-12-01

    The active layer, or the uppermost soil horizon that thaws seasonally, is among the most dynamic components of the permafrost system. Evaluation of the thickness and spatial variation of the active layer is critical to many components of Arctic research, including climatology, ecology, environmental monitoring, and engineering. In this study we mapped active-layer thickness (ALT) across the 22,278 sq. km Kuparuk River basin on Alaska's North Slope throughout the summer of 2016. The Kuparuk River extends from the Brooks Range through the Arctic Foothills and across the Arctic Coastal Plain physiographic provinces, and drains into the Beaufort Sea. Methodology followed procedures used to produce an ALT map of the basin in 1995 accounting for the effects of topography, vegetation, topoclimate, and soils, using the same spatial sampling scheme for direct ALT and temperature measurement at representative locations and relating these parameters to vegetation-soil associations. A simple semi-empirical engineering solution was used to estimate thaw rates for the different associations. An improved lapse-rate formulation and a higher-resolution DEM were used to relate temperature to elevation. Three ALT maps were generated for the 2016 summer, combining measured thaw depth, temperature records, the 25 m ArcticDEM, high resolution remote sensed data, empirical laps rates, and a topoclimatic index through the thaw solution. These maps were used to track the spatial progression of thaw through the 2016 summer season and estimate a total volume of thawed soil. Maps produced in this study were compared to the 1995 map to track areas of significant geographic changes in patterns of ALT and total volume of thawed soil.

  18. Comparison of Genetic Algorithm and Hill Climbing for Shortest Path Optimization Mapping

    NASA Astrophysics Data System (ADS)

    Fronita, Mona; Gernowo, Rahmat; Gunawan, Vincencius

    2018-02-01

    Traveling Salesman Problem (TSP) is an optimization to find the shortest path to reach several destinations in one trip without passing through the same city and back again to the early departure city, the process is applied to the delivery systems. This comparison is done using two methods, namely optimization genetic algorithm and hill climbing. Hill Climbing works by directly selecting a new path that is exchanged with the neighbour's to get the track distance smaller than the previous track, without testing. Genetic algorithms depend on the input parameters, they are the number of population, the probability of crossover, mutation probability and the number of generations. To simplify the process of determining the shortest path supported by the development of software that uses the google map API. Tests carried out as much as 20 times with the number of city 8, 16, 24 and 32 to see which method is optimal in terms of distance and time computation. Based on experiments conducted with a number of cities 3, 4, 5 and 6 producing the same value and optimal distance for the genetic algorithm and hill climbing, the value of this distance begins to differ with the number of city 7. The overall results shows that these tests, hill climbing are more optimal to number of small cities and the number of cities over 30 optimized using genetic algorithms.

  19. Structure-activity models of oral clearance, cytotoxicity, and LD50: a screen for promising anticancer compounds

    PubMed Central

    Boik, John C; Newman, Robert A

    2008-01-01

    Background Quantitative structure-activity relationship (QSAR) models have become popular tools to help identify promising lead compounds in anticancer drug development. Few QSAR studies have investigated multitask learning, however. Multitask learning is an approach that allows distinct but related data sets to be used in training. In this paper, a suite of three QSAR models is developed to identify compounds that are likely to (a) exhibit cytotoxic behavior against cancer cells, (b) exhibit high rat LD50 values (low systemic toxicity), and (c) exhibit low to modest human oral clearance (favorable pharmacokinetic characteristics). Models were constructed using Kernel Multitask Latent Analysis (KMLA), an approach that can effectively handle a large number of correlated data features, nonlinear relationships between features and responses, and multitask learning. Multitask learning is particularly useful when the number of available training records is small relative to the number of features, as was the case with the oral clearance data. Results Multitask learning modestly but significantly improved the classification precision for the oral clearance model. For the cytotoxicity model, which was constructed using a large number of records, multitask learning did not affect precision but did reduce computation time. The models developed here were used to predict activities for 115,000 natural compounds. Hundreds of natural compounds, particularly in the anthraquinone and flavonoids groups, were predicted to be cytotoxic, have high LD50 values, and have low to moderate oral clearance. Conclusion Multitask learning can be useful in some QSAR models. A suite of QSAR models was constructed and used to screen a large drug library for compounds likely to be cytotoxic to multiple cancer cell lines in vitro, have low systemic toxicity in rats, and have favorable pharmacokinetic properties in humans. PMID:18554402

  20. Structure-activity models of oral clearance, cytotoxicity, and LD50: a screen for promising anticancer compounds.

    PubMed

    Boik, John C; Newman, Robert A

    2008-06-13

    Quantitative structure-activity relationship (QSAR) models have become popular tools to help identify promising lead compounds in anticancer drug development. Few QSAR studies have investigated multitask learning, however. Multitask learning is an approach that allows distinct but related data sets to be used in training. In this paper, a suite of three QSAR models is developed to identify compounds that are likely to (a) exhibit cytotoxic behavior against cancer cells, (b) exhibit high rat LD50 values (low systemic toxicity), and (c) exhibit low to modest human oral clearance (favorable pharmacokinetic characteristics). Models were constructed using Kernel Multitask Latent Analysis (KMLA), an approach that can effectively handle a large number of correlated data features, nonlinear relationships between features and responses, and multitask learning. Multitask learning is particularly useful when the number of available training records is small relative to the number of features, as was the case with the oral clearance data. Multitask learning modestly but significantly improved the classification precision for the oral clearance model. For the cytotoxicity model, which was constructed using a large number of records, multitask learning did not affect precision but did reduce computation time. The models developed here were used to predict activities for 115,000 natural compounds. Hundreds of natural compounds, particularly in the anthraquinone and flavonoids groups, were predicted to be cytotoxic, have high LD50 values, and have low to moderate oral clearance. Multitask learning can be useful in some QSAR models. A suite of QSAR models was constructed and used to screen a large drug library for compounds likely to be cytotoxic to multiple cancer cell lines in vitro, have low systemic toxicity in rats, and have favorable pharmacokinetic properties in humans.

  1. 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...

  2. Identification of a psoriasis susceptibility candidate gene by linkage disequilibrium mapping with a localized single nucleotide polymorphism map.

    PubMed

    Hewett, Duncan; Samuelsson, Lena; Polding, Joanne; Enlund, Fredrik; Smart, Devi; Cantone, Kathryn; See, Chee Gee; Chadha, Sapna; Inerot, Annica; Enerback, Charlotta; Montgomery, Doug; Christodolou, Chris; Robinson, Phil; Matthews, Paul; Plumpton, Mary; Wahlstrom, Jan; Swanbeck, Gunnar; Martinsson, Tommy; Roses, Allen; Riley, John; Purvis, Ian

    2002-03-01

    Psoriasis is a chronic inflammatory disease of the skin with both genetic and environmental risk factors. Here we describe the creation of a single-nucleotide polymorphism (SNP) map spanning 900-1200 kb of chromosome 3q21, which had been previously recognized as containing a psoriasis susceptibility locus, PSORS5. We genotyped 644 individuals, from 195 Swedish psoriatic families, for 19 polymorphisms. Linkage disequilibrium (LD) between marker and disease was assessed using the transmission/disequilibrium test (TDT). In the TDT analysis, alleles of three of these SNPs showed significant association with disease (P<0.05). A 160-kb interval encompassing these three SNPs was sequenced, and a coding sequence consisting of 13 exons was identified. The predicted protein shares 30-40% homology with the family of cation/chloride cotransporters. A five-marker haplotype spanning the 3' half of this gene is associated with psoriasis to a P value of 3.8<10(-5). We have called this gene SLC12A8, coding for a member of the solute carrier family 12 proteins. It belongs to a class of genes that were previously unrecognized as playing a role in psoriasis pathogenesis.

  3. Comparison and assessment of coarse resolution land cover maps for Northern Eurasia

    Treesearch

    Dirk Pflugmacher; Olga N. Krankina; Warren B. Cohen; Mark A. Friedl; Damien Sulla-Menashe; Robert E. Kennedy; Peder Nelson; Tatiana V. Loboda; Tobias Kuemmerle; Egor Dyukarev; Vladimir Elsadov; Viacheslav I. Kharuk

    2011-01-01

    Information on land cover at global and continental scales is critical for addressing a range of ecological, socioeconomic and policy questions. Global land cover maps have evolved rapidly in the last decade, but efforts to evaluate map uncertainties have been limited, especially in remote areas like Northern Eurasia. Northern Eurasia comprises a particularly diverse...

  4. Exploiting genotyping by sequencing to characterize the genomic structure of the American cranberry through high-density linkage mapping.

    PubMed

    Covarrubias-Pazaran, Giovanny; Diaz-Garcia, Luis; Schlautman, Brandon; Deutsch, Joseph; Salazar, Walter; Hernandez-Ochoa, Miguel; Grygleski, Edward; Steffan, Shawn; Iorizzo, Massimo; Polashock, James; Vorsa, Nicholi; Zalapa, Juan

    2016-06-13

    The application of genotyping by sequencing (GBS) approaches, combined with data imputation methodologies, is narrowing the genetic knowledge gap between major and understudied, minor crops. GBS is an excellent tool to characterize the genomic structure of recently domesticated (~200 years) and understudied species, such as cranberry (Vaccinium macrocarpon Ait.), by generating large numbers of markers for genomic studies such as genetic mapping. We identified 10842 potentially mappable single nucleotide polymorphisms (SNPs) in a cranberry pseudo-testcross population wherein 5477 SNPs and 211 short sequence repeats (SSRs) were used to construct a high density linkage map in cranberry of which a total of 4849 markers were mapped. Recombination frequency, linkage disequilibrium (LD), and segregation distortion at the genomic level in the parental and integrated linkage maps were characterized for first time in cranberry. SSR markers, used as the backbone in the map, revealed high collinearity with previously published linkage maps. The 4849 point map consisted of twelve linkage groups spanning 1112 cM, which anchored 2381 nuclear scaffolds accounting for ~13 Mb of the estimated 470 Mb cranberry genome. Bin mapping identified 592 and 672 unique bins in the parentals and a total of 1676 unique marker positions in the integrated map. Synteny analyses comparing the order of anchored cranberry scaffolds to their homologous positions in kiwifruit, grape, and coffee genomes provided initial evidence of homology between cranberry and closely related species. GBS data was used to rapidly saturate the cranberry genome with markers in a pseudo-testcross population. Collinearity between the present saturated genetic map and previous cranberry SSR maps suggests that the SNP locations represent accurate marker order and chromosome structure of the cranberry genome. SNPs greatly improved current marker genome coverage, which allowed for genome-wide structure investigations such

  5. A Comparison of Five FMRI Protocols for Mapping Speech Comprehension Systems

    PubMed Central

    Binder, Jeffrey R.; Swanson, Sara J.; Hammeke, Thomas A.; Sabsevitz, David S.

    2008-01-01

    Aims Many fMRI protocols for localizing speech comprehension have been described, but there has been little quantitative comparison of these methods. We compared five such protocols in terms of areas activated, extent of activation, and lateralization. Methods FMRI BOLD signals were measured in 26 healthy adults during passive listening and active tasks using words and tones. Contrasts were designed to identify speech perception and semantic processing systems. Activation extent and lateralization were quantified by counting activated voxels in each hemisphere for each participant. Results Passive listening to words produced bilateral superior temporal activation. After controlling for pre-linguistic auditory processing, only a small area in the left superior temporal sulcus responded selectively to speech. Active tasks engaged an extensive, bilateral attention and executive processing network. Optimal results (consistent activation and strongly lateralized pattern) were obtained by contrasting an active semantic decision task with a tone decision task. There was striking similarity between the network of brain regions activated by the semantic task and the network of brain regions that showed task-induced deactivation, suggesting that semantic processing occurs during the resting state. Conclusions FMRI protocols for mapping speech comprehension systems differ dramatically in pattern, extent, and lateralization of activation. Brain regions involved in semantic processing were identified only when an active, non-linguistic task was used as a baseline, supporting the notion that semantic processing occurs whenever attentional resources are not controlled. Identification of these lexical-semantic regions is particularly important for predicting language outcome in patients undergoing temporal lobe surgery. PMID:18513352

  6. Comparison of the Experimental Performance of Ferroelectric CPW Circuits with Method of Moment Simulations and Conformal Mapping

    NASA Technical Reports Server (NTRS)

    VanKeuls, Fred W.; Chevalier, Chris T.; Miranda, Felix A.; Carlson, C. M.; Rivkin, T. V.; Parilla, P. A.; Perkins, J. D.; Ginley, D. S.

    2001-01-01

    Experimental measurements of coplanar waveguide (CPW) circuits atop thin films of ferroelectric Ba(x)Sr(1-x)TiO3 (BST) were made as a function bias from 0 to 200 V and frequency from 0.045 to 20 GHz. The resulting phase shifts are compared with method of moments electromagnetic simulations and a conformal mapping analysis to determine the dielectric constant of the BST films. Based on the correlation between the experimental and the modeled data, an analysis of the extent to which the electromagnetic simulators provide reliable values for the dielectric constant of the ferroelectric in these structures has been performed. In addition, to determine how well the modeled data compare with experimental data, the dielectric constant values were also compared to low frequency measurements of interdigitated capacitor circuits on the same films. Results of these comparisons will be presented.

  7. Comparison of ASTER- and AVIRIS-Derived Mineraland Vegetation Maps of the White Horse Replacement Alunite Deposit and Surrounding Area, Marysvale Volcanic Field, Utah

    USGS Publications Warehouse

    Rockwell, Barnaby W.

    2009-01-01

    This report presents and compares mineral and vegetation maps of parts of the Marysvale volcanic field in west-central Utah that were published in a recent paper describing the White Horse replacement alunite deposit. Detailed, field-verified maps of the deposit were produced from Airborne Visible/Infrared Imaging Spectrometer (AVIRIS) data acquired from a low-altitude Twin Otter turboprop airborne platform. Reconnaissance-level maps of surrounding areas including the central and northern Tushar Mountains, Pahvant Range, and portions of the Sevier Plateau to the east were produced from visible, near-infrared, and shortwave-infrared data acquired by the Advanced Spaceborne Thermal Emission and Reflection Radiometer (ASTER) sensor carried aboard the Terra satellite platform. These maps are also compared to a previously published mineral map of the same area generated from AVIRIS data acquired from the high-altitude NASA ER-2 jet platform. All of the maps were generated by similar analysis methods, enabling the direct comparison of the spatial scale and mineral composition of surface geologic features that can be identified using the three types of remote sensing data. The high spatial (2-17 meter) and spectral (224 bands) resolution AVIRIS data can be used to generate detailed mineral and vegetation maps suitable for geologic and geoenvironmental studies of individual deposits, mines, and smelters. The lower spatial (15-30 meter) and spectral (9 bands) resolution ASTER data are better suited to less detailed mineralogical studies of lithology and alteration across entire hydrothermal systems and mining districts, including regional mineral resource and geoenvironmental assessments. The results presented here demonstrate that minerals and mineral mixtures can be directly identified using AVIRIS and ASTER data to elucidate spatial patterns of mineralogic zonation; AVIRIS data can enable the generation of maps with significantly greater detail and accuracy. The

  8. The evolution of mapping habitat for northern spotted owls (Strix occidentalis caurina): A comparison of photo-interpreted, Landsat-based, and lidar-based habitat maps

    Treesearch

    Steven H. Ackers; Raymond J. Davis; Keith A. Olsen; Katie M. Dugger

    2015-01-01

    Wildlife habitat mapping has evolved at a rapid pace over the last fewdecades. Beginning with simple, often subjective, hand-drawn maps, habitat mapping now involves complex species distribution models (SDMs) using mapped predictor variables derived from remotely sensed data. For species that inhabit large geographic areas, remote sensing technology is often...

  9. A Concept Hierarchy Based Ontology Mapping Approach

    NASA Astrophysics Data System (ADS)

    Wang, Ying; Liu, Weiru; Bell, David

    Ontology mapping is one of the most important tasks for ontology interoperability and its main aim is to find semantic relationships between entities (i.e. concept, attribute, and relation) of two ontologies. However, most of the current methods only consider one to one (1:1) mappings. In this paper we propose a new approach (CHM: Concept Hierarchy based Mapping approach) which can find simple (1:1) mappings and complex (m:1 or 1:m) mappings simultaneously. First, we propose a new method to represent the concept names of entities. This method is based on the hierarchical structure of an ontology such that each concept name of entity in the ontology is included in a set. The parent-child relationship in the hierarchical structure of an ontology is then extended as a set-inclusion relationship between the sets for the parent and the child. Second, we compute the similarities between entities based on the new representation of entities in ontologies. Third, after generating the mapping candidates, we select the best mapping result for each source entity. We design a new algorithm based on the Apriori algorithm for selecting the mapping results. Finally, we obtain simple (1:1) and complex (m:1 or 1:m) mappings. Our experimental results and comparisons with related work indicate that utilizing this method in dealing with ontology mapping is a promising way to improve the overall mapping results.

  10. User Preferences in Image Map Using

    NASA Astrophysics Data System (ADS)

    Vondráková, A.; Vozenilek, V.

    2016-06-01

    In the process of map making, the attention is given to the resulting image map (to be accurate, readable, and suit the primary purpose) and its user aspects. Current cartography understands the user issues as all matters relating to user perception, map use and also user preferences. Most commercial cartographic production is strongly connected to economic circumstances. Companies are discovering user's interests and market demands. However, is it sufficient to focus just on the user's preferences? Recent research on user aspects at Palacký University Olomouc addresses a much wider scope of user aspects. The user's preferences are very often distorting - the users think that the particular image map is kind, beautiful, and useful and they wants to buy it (or use it - it depends on the form of the map production). But when the same user gets the task to use practically this particular map (such as finding the shortest way), so the user concludes that initially preferred map is useless, and uses a map, that was worse evaluated according to his preferences. It is, therefore, necessary to evaluate not only the correctness of image maps and their aesthetics but also to assess the user perception and other user issues. For the accomplishment of such testing, eye-tracking technology is a useful tool. The research analysed how users read image maps, or if they prefer image maps over traditional maps. The eye tracking experiment on the comparison of the conventional and image map reading was conducted. The map readers were asked to solve few simple tasks with either conventional or image map. The readers' choice of the map to solve the task was one of investigated aspect of user preferences. Results demonstrate that the user preferences and user needs are often quite different issues. The research outcomes show that it is crucial to implement map user testing into the cartographic production process.

  11. Volumetric-modulated Arc Therapy Lung Stereotactic Body Radiation Therapy Dosimetric Quality Assurance: A Comparison between Radiochromic Film and Chamber Array.

    PubMed

    Colodro, Juan Fernando Mata; Berná, Alfredo Serna; Puchades, Vicente Puchades; Amores, David Ramos; Baños, Miguel Alcaraz

    2017-01-01

    The aim of this work is to verify the use of radiochromic film in the quality assurance (QA) of volumetric-modulated arc therapy (VMAT) lung stereotactic body radiation therapy (SBRT) plans and compare the results with those obtained using an ion chamber array. QA was performed for 14 plans using a two-dimensional-array seven29 and EBT3 film. Dose values per session ranged between 7.5 Gy and 18 Gy. The multichannel method was used to obtain a dose map for film. The results obtained were compared with treatment planning system calculated profiles through gamma analysis. Passing criteria were 3%/3 mm, 2%/2 mm and 3%/1.5 mm with maximum and local dose (LD) normalization. Mean gamma passing rate (GPR) (percentage of points presenting a gamma function value of <1) was obtained and compared. Calibration curves were obtained for each color channel within the dose range 0-16 Gy. Mean GPR values for film were >98.9% for all criteria when normalizing per maximum dose. When using LD, normalization was >92.7%. GPR values for the array were lower for all criteria; this difference being statistically significant when normalizing at LD, reaching 12% for the 3%/1.5 mm criterion. Both detectors provide satisfactory results for the QA of plans for VMAT lung SBRT. The film provided greater mean GPR values, afforded greater spatial resolution and was more efficient overall.

  12. Volumetric-modulated Arc Therapy Lung Stereotactic Body Radiation Therapy Dosimetric Quality Assurance: A Comparison between Radiochromic Film and Chamber Array

    PubMed Central

    Colodro, Juan Fernando Mata; Berná, Alfredo Serna; Puchades, Vicente Puchades; Amores, David Ramos; Baños, Miguel Alcaraz

    2017-01-01

    Introduction: The aim of this work is to verify the use of radiochromic film in the quality assurance (QA) of volumetric-modulated arc therapy (VMAT) lung stereotactic body radiation therapy (SBRT) plans and compare the results with those obtained using an ion chamber array. Materials and Methods: QA was performed for 14 plans using a two-dimensional-array seven29 and EBT3 film. Dose values per session ranged between 7.5 Gy and 18 Gy. The multichannel method was used to obtain a dose map for film. Results: The results obtained were compared with treatment planning system calculated profiles through gamma analysis. Passing criteria were 3%/3 mm, 2%/2 mm and 3%/1.5 mm with maximum and local dose (LD) normalization. Mean gamma passing rate (GPR) (percentage of points presenting a gamma function value of <1) was obtained and compared. Calibration curves were obtained for each color channel within the dose range 0–16 Gy. Mean GPR values for film were >98.9% for all criteria when normalizing per maximum dose. When using LD, normalization was >92.7%. GPR values for the array were lower for all criteria; this difference being statistically significant when normalizing at LD, reaching 12% for the 3%/1.5 mm criterion. Conclusion: Both detectors provide satisfactory results for the QA of plans for VMAT lung SBRT. The film provided greater mean GPR values, afforded greater spatial resolution and was more efficient overall. PMID:28974858

  13. Polysaccharides induce radioprotection of murine hemopoietic stem cells and increase the LD50/30 days

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

    Maisin, J.R.; Kondi-Tamba, A.; Mattelin, G.

    1986-02-01

    Intravenous administration of 60 mg/kg of a polysaccharide (MNR, MNZ, GLP/BO4, GLP/BO5) significantly decreases the mortality of mice exposed to a single dose of X rays. The dose reduction factors (DRF) obtained for MNZ, MNR, GLP/BO4, and GLP/BO5 given intraperitoneally 15 min before exposure were 2.16, 1.93, 1.80, and 1.94, respectively. The DRF was not increased when MNZ or GLP/BO4 were combined with injection of AET before X-ray exposure. The LD50 for the CFUs exposed in vivo in mice was 1.13 Gy for the treated mice and 0.75 Gy for the nontreated mice. This corresponds to a DRF of 1.6.more » The DRF calculated from the slope is 1.27.« less

  14. Variable Sampling Mapping

    NASA Technical Reports Server (NTRS)

    Smith, Jeffrey, S.; Aronstein, David L.; Dean, Bruce H.; Lyon, Richard G.

    2012-01-01

    The performance of an optical system (for example, a telescope) is limited by the misalignments and manufacturing imperfections of the optical elements in the system. The impact of these misalignments and imperfections can be quantified by the phase variations imparted on light traveling through the system. Phase retrieval is a methodology for determining these variations. Phase retrieval uses images taken with the optical system and using a light source of known shape and characteristics. Unlike interferometric methods, which require an optical reference for comparison, and unlike Shack-Hartmann wavefront sensors that require special optical hardware at the optical system's exit pupil, phase retrieval is an in situ, image-based method for determining the phase variations of light at the system s exit pupil. Phase retrieval can be used both as an optical metrology tool (during fabrication of optical surfaces and assembly of optical systems) and as a sensor used in active, closed-loop control of an optical system, to optimize performance. One class of phase-retrieval algorithms is the iterative transform algorithm (ITA). ITAs estimate the phase variations by iteratively enforcing known constraints in the exit pupil and at the detector, determined from modeled or measured data. The Variable Sampling Mapping (VSM) technique is a new method for enforcing these constraints in ITAs. VSM is an open framework for addressing a wide range of issues that have previously been considered detrimental to high-accuracy phase retrieval, including undersampled images, broadband illumination, images taken at or near best focus, chromatic aberrations, jitter or vibration of the optical system or detector, and dead or noisy detector pixels. The VSM is a model-to-data mapping procedure. In VSM, fully sampled electric fields at multiple wavelengths are modeled inside the phase-retrieval algorithm, and then these fields are mapped to intensities on the light detector, using the properties

  15. Cartographic sign as a core of multimedia map prepared by non-cartographers in free map services

    NASA Astrophysics Data System (ADS)

    Medyńska-Gulij, Beata

    2014-06-01

    The fundamental importance of cartographic signs in traditional maps is unquestionable, although in the case of multimedia maps their key function is not so obvious. Our aim was to search the problem of cartographic signs as a core of multimedia maps prepared by non-cartographer in on-line Map Services. First, preestablished rules for multimedia map designers were prepared emphasizing the key role of the cartographic signs and habits of Web-users. The comparison of projects completed by a group of designers led us to the general conclusion that a cartographic sign should determine the design of a multimedia map in on-line Map Services. Despite the selection of five different map topics, one may list the general characteristics of the maps with a cartographic sign in the core. Fundamentalne znaczenie znaków kartograficznych na tradycyjnej mapie nie budzi wątpliwości, jednak w przypadku multimedialnej mapy ich kluczowa funkcja nie jest już tak oczywista. W tych badaniach podjęto problem znaczenia znaku kartograficznego jako spoiwa mapy multimedialnej opracowanej przez nie-kartografa w darmowych serwisach mapowych. Zadaniem dla projektujących mapy stało się opracowanie mapy multimedialnej według ustalonych wstępnie zasad, w której kluczową rolę odgrywały znaki kartograficzne oraz przyzwyczajenia użytkowników Internetu. Porównanie wypełnionych arkuszy zadań przez uczestników badań skłania do wyciągnięcia generalnego wniosku, że znak kartograficzny powinien determinować projektowanie multimedialnej mapy w serwisach mapowych on-line. Pomimo opracowania pięciu różnych tematów map, można wymienić ogólne charakterystyki map, w których znak kartograficzny jest spoiwem.

  16. A clone-free, single molecule map of the domestic cow (Bos taurus) genome.

    PubMed

    Zhou, Shiguo; Goldstein, Steve; Place, Michael; Bechner, Michael; Patino, Diego; Potamousis, Konstantinos; Ravindran, Prabu; Pape, Louise; Rincon, Gonzalo; Hernandez-Ortiz, Juan; Medrano, Juan F; Schwartz, David C

    2015-08-28

    The cattle (Bos taurus) genome was originally selected for sequencing due to its economic importance and unique biology as a model organism for understanding other ruminants, or mammals. Currently, there are two cattle genome sequence assemblies (UMD3.1 and Btau4.6) from groups using dissimilar assembly algorithms, which were complemented by genetic and physical map resources. However, past comparisons between these assemblies revealed substantial differences. Consequently, such discordances have engendered ambiguities when using reference sequence data, impacting genomic studies in cattle and motivating construction of a new optical map resource--BtOM1.0--to guide comparisons and improvements to the current sequence builds. Accordingly, our comprehensive comparisons of BtOM1.0 against the UMD3.1 and Btau4.6 sequence builds tabulate large-to-immediate scale discordances requiring mediation. The optical map, BtOM1.0, spanning the B. taurus genome (Hereford breed, L1 Dominette 01449) was assembled from an optical map dataset consisting of 2,973,315 (439 X; raw dataset size before assembly) single molecule optical maps (Rmaps; 1 Rmap = 1 restriction mapped DNA molecule) generated by the Optical Mapping System. The BamHI map spans 2,575.30 Mb and comprises 78 optical contigs assembled by a combination of iterative (using the reference sequence: UMD3.1) and de novo assembly techniques. BtOM1.0 is a high-resolution physical map featuring an average restriction fragment size of 8.91 Kb. Comparisons of BtOM1.0 vs. UMD3.1, or Btau4.6, revealed that Btau4.6 presented far more discordances (7,463) vs. UMD3.1 (4,754). Overall, we found that Btau4.6 presented almost double the number of discordances than UMD3.1 across most of the 6 categories of sequence vs. map discrepancies, which are: COMPLEX (misassembly), DELs (extraneous sequences), INSs (missing sequences), ITs (Inverted/Translocated sequences), ECs (extra restriction cuts) and MCs (missing restriction cuts

  17. A Comparison of Two Instructional Methods for Teaching Logo to Learning Disabled and Nonlearning Disabled Children.

    ERIC Educational Resources Information Center

    Mathinos, Debra A.; Leonard, Ann Scheier

    The study examines the use of LOGO, a computer language, with 19 learning disabled (LD) and 19 non-LD students in grades 4-6. Ss were randomly assigned to one of two instructional groups: sequential or whole-task, each with 10 LD and 10 non-LD students. The sequential method features a carefully ordered plan for teaching LOGO commands; the…

  18. Mapping Urban Environmental Noise Using Smartphones.

    PubMed

    Zuo, Jinbo; Xia, Hao; Liu, Shuo; Qiao, Yanyou

    2016-10-13

    Noise mapping is an effective method of visualizing and accessing noise pollution. In this paper, a noise-mapping method based on smartphones to effectively and easily measure environmental noise is proposed. By using this method, a noise map of an entire area can be created using limited measurement data. To achieve the measurement with certain precision, a set of methods was designed to calibrate the smartphones. Measuring noise with mobile phones is different from the traditional static observations. The users may be moving at any time. Therefore, a method of attaching an additional microphone with a windscreen is proposed to reduce the wind effect. However, covering an entire area is impossible. Therefore, an interpolation method is needed to achieve full coverage of the area. To reduce the influence of spatial heterogeneity and improve the precision of noise mapping, a region-based noise-mapping method is proposed in this paper, which is based on the distribution of noise in different region types tagged by volunteers, to interpolate and combine them to create a noise map. To validate the effect of the method, a comparison of the interpolation results was made to analyse our method and the ordinary Kriging method. The result shows that our method is more accurate in reflecting the local distribution of noise and has better interpolation precision. We believe that the proposed noise-mapping method is a feasible and low-cost noise-mapping solution.

  19. Mapping Urban Environmental Noise Using Smartphones

    PubMed Central

    Zuo, Jinbo; Xia, Hao; Liu, Shuo; Qiao, Yanyou

    2016-01-01

    Noise mapping is an effective method of visualizing and accessing noise pollution. In this paper, a noise-mapping method based on smartphones to effectively and easily measure environmental noise is proposed. By using this method, a noise map of an entire area can be created using limited measurement data. To achieve the measurement with certain precision, a set of methods was designed to calibrate the smartphones. Measuring noise with mobile phones is different from the traditional static observations. The users may be moving at any time. Therefore, a method of attaching an additional microphone with a windscreen is proposed to reduce the wind effect. However, covering an entire area is impossible. Therefore, an interpolation method is needed to achieve full coverage of the area. To reduce the influence of spatial heterogeneity and improve the precision of noise mapping, a region-based noise-mapping method is proposed in this paper, which is based on the distribution of noise in different region types tagged by volunteers, to interpolate and combine them to create a noise map. To validate the effect of the method, a comparison of the interpolation results was made to analyse our method and the ordinary Kriging method. The result shows that our method is more accurate in reflecting the local distribution of noise and has better interpolation precision. We believe that the proposed noise-mapping method is a feasible and low-cost noise-mapping solution. PMID:27754359

  20. 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

  1. Uncertainty in the spatial distribution of tropical forest biomass: a comparison of pan-tropical maps.

    PubMed

    Mitchard, Edward Ta; Saatchi, Sassan S; Baccini, Alessandro; Asner, Gregory P; Goetz, Scott J; Harris, Nancy L; Brown, Sandra

    2013-10-26

    Mapping the aboveground biomass of tropical forests is essential both for implementing conservation policy and reducing uncertainties in the global carbon cycle. Two medium resolution (500 m - 1000 m) pantropical maps of vegetation biomass have been recently published, and have been widely used by sub-national and national-level activities in relation to Reducing Emissions from Deforestation and forest Degradation (REDD+). Both maps use similar input data layers, and are driven by the same spaceborne LiDAR dataset providing systematic forest height and canopy structure estimates, but use different ground datasets for calibration and different spatial modelling methodologies. Here, we compare these two maps to each other, to the FAO's Forest Resource Assessment (FRA) 2010 country-level data, and to a high resolution (100 m) biomass map generated for a portion of the Colombian Amazon. We find substantial differences between the two maps, in particular in central Amazonia, the Congo basin, the south of Papua New Guinea, the Miombo woodlands of Africa, and the dry forests and savannas of South America. There is little consistency in the direction of the difference. However, when the maps are aggregated to the country or biome scale there is greater agreement, with differences cancelling out to a certain extent. When comparing country level biomass stocks, the two maps agree with each other to a much greater extent than to the FRA 2010 estimates. In the Colombian Amazon, both pantropical maps estimate higher biomass than the independent high resolution map, but show a similar spatial distribution of this biomass. Biomass mapping has progressed enormously over the past decade, to the stage where we can produce globally consistent maps of aboveground biomass. We show that there are still large uncertainties in these maps, in particular in areas with little field data. However, when used at a regional scale, different maps appear to converge, suggesting we can provide

  2. Outcomes for kidney transplants at the National University Health System: comparison with overseas transplants.

    PubMed

    Vathsala, Anantharaman

    2010-01-01

    The 5-year and 10-year graft survivals for 186 deceased donor (DD) transplants performed at National University Health System (NUHS) were 79.9% and 58.4% respectively. 5-year and 10-year patient survivals for DD transplants performed at NUHS were 94.2% and 83.4%. The 5-year and 10-year graft survivals for 128 living donor (LD) transplants performed at NUHS were 90.2% and 72% respectively. 5-year and 10-year patient survivals for DD transplants performed at NUHS were 98.6% and 95.1%. The projected graft half lives were 14.6 and 20.6 years for DD and LD transplants respectively. These results compare favorably with the 10-year survival rates of 40% and 58% for DD and LD grafts reported by the United States Renal Data System (USRDS) in 2010. The younger age and the lower prevalence of diabetes and HLAmismatch in the DD and LD transplant study populations, in comparison to the USRDS population and perhaps better access and compliance to maintenance immunosuppression, could have contributed to these excellent outcomes. The 5-year and 10-year graft survivals for 162 transplants receiving what were likely deceased donor kidneys from China were 89.2% and 69.2% respectively. Although these survivals were apparently better than that for DD performed at NUHS, the advantage for China Tx disappeared when DD with primary non function or vascular thrombosis were excluded from analysis. The 5-year and 10-year patient survivals for 30 transplants receiving live non-related transplants from India were 82.3% and 60.1%. Both groups were considered to have received commercial transplants based on various aspects of history from the patients. Among those receiving China_Tx or India Tx, there were a disproportionate number of males and Chinese; and a significant proportion underwent pre-emptive transplant or transplant after only a short period of dialysis. Prevalence of post-transplant hepatitis B was significantly higher among China_Tx than their DD counterparts (7.7% vs. 1.2%, P = 0

  3. Syntactic and Reading Abilities in Normal and Learning Disabled Junior High School Students.

    ERIC Educational Resources Information Center

    Ferraro, Mary F.; Doyle, Beverly A.

    The study involving 12 learning disabled (LD) junior high school students investigated whether LD students with reading comprehension difficulties were deficient in syntactic abilities as compared to normal students. Syntactic and reading tests were administered to each student. Comparison of the scores between the two groups showed that LD Ss…

  4. Skin blood flow: a comparison of transcutaneous oximetry and laser Doppler flowmetry.

    PubMed

    Allen, P I; Goldman, M

    1987-10-01

    In normal limbs skin blood flow (SBF) falls on standing, but in ischaemic limbs there is a characteristic blush on dependancy. We studied the effect of changing posture in a range of ischaemic limbs, using two non-invasive techniques--laser Doppler (LD) and transcutaneous oximetry (TcPO2). Warmed TcPO2 and LD probes were placed over the first metatarsal cleft and SBF recorded with the limb horizontal, dependant and elevated. Ankle to brachial pressure ratios (A:B) were also measured. Twelve patients with lower limb ischaemia, mean A:B ratio 0.5 +/- 0.21 (+/- S.D.) were compared with 21 asymptomatic controls, mean A:B ratio 1.2 +/- 0.15. In the controls, neither TcPO2 nor LD values changed significantly with limb position. Both flux and oxygen tension were significantly lower in ischaemic limbs in all positions; on lowering the ischaemic limb, flux unexpectedly rose to 23.5 +/- 17.7 V from a mean of 14 + 9.0 V (horizontal). Both TcPO2 and LD correlated well with A:B ratio in two positions: horizontal r (TcPO2) = 0.73, r(LD) = 0.57; elevated r(TcPO2) = 0.78, r(LD) = 0.68. Overall there was a highly significant correlation between LD and TcPO2 (r = 0.6, P less than 0.001, Student's test), but this was strongest in the elevated position (r = 0.87, P less than 0.001). LD and TcPO2 relate to A:B ratio and to each other, particularly in the stressed limb; in the well perfused limb, the poorer correlation suggests skin perfusion is not linearly related to tissue oxygen tension.

  5. Mapping permafrost in the boreal forest with Thematic Mapper satellite data

    NASA Technical Reports Server (NTRS)

    Morrissey, L. A.; Strong, L. L.; Card, D. H.

    1986-01-01

    A geographic data base incorporating Landsat TM data was used to develop and evaluate logistic discriminant functions for predicting the distribution of permafrost in a boreal forest watershed. The data base included both satellite-derived information and ancillary map data. Five permafrost classifications were developed from a stratified random sample of the data base and evaluated by comparison with a photo-interpreted permafrost map using contingency table analysis and soil temperatures recorded at sites within the watershed. A classification using a TM thermal band and a TM-derived vegetation map as independent variables yielded the highest mapping accuracy for all permafrost categories.

  6. Mapping patent classifications: portfolio and statistical analysis, and the comparison of strengths and weaknesses.

    PubMed

    Leydesdorff, Loet; Kogler, Dieter Franz; Yan, Bowen

    2017-01-01

    The Cooperative Patent Classifications (CPC) recently developed cooperatively by the European and US Patent Offices provide a new basis for mapping patents and portfolio analysis. CPC replaces International Patent Classifications (IPC) of the World Intellectual Property Organization. In this study, we update our routines previously based on IPC for CPC and use the occasion for rethinking various parameter choices. The new maps are significantly different from the previous ones, although this may not always be obvious on visual inspection. We provide nested maps online and a routine for generating portfolio overlays on the maps; a new tool is provided for "difference maps" between patent portfolios of organizations or firms. This is illustrated by comparing the portfolios of patents granted to two competing firms-Novartis and MSD-in 2016. Furthermore, the data is organized for the purpose of statistical analysis.

  7. Comparison of cryoablation with 3D mapping versus conventional mapping for the treatment of atrioventricular re-entrant tachycardia and right-sided paraseptal accessory pathways.

    PubMed

    Russo, Mario S; Drago, Fabrizio; Silvetti, Massimo S; Righi, Daniela; Di Mambro, Corrado; Placidi, Silvia; Prosperi, Monica; Ciani, Michele; Naso Onofrio, Maria T; Cannatà, Vittorio

    2016-06-01

    Aim Transcatheter cryoablation is a well-established technique for the treatment of atrioventricular nodal re-entry tachycardia and atrioventricular re-entry tachycardia in children. Fluoroscopy or three-dimensional mapping systems can be used to perform the ablation procedure. The aim of this study was to compare the success rate of cryoablation procedures for the treatment of right septal accessory pathways and atrioventricular nodal re-entry circuits in children using conventional or three-dimensional mapping and to evaluate whether three-dimensional mapping was associated with reduced patient radiation dose compared with traditional mapping. In 2013, 81 children underwent transcatheter cryoablation at our institution, using conventional mapping in 41 children - 32 atrioventricular nodal re-entry tachycardia and nine atrioventricular re-entry tachycardia - and three-dimensional mapping in 40 children - 24 atrioventricular nodal re-entry tachycardia and 16 atrioventricular re-entry tachycardia. Using conventional mapping, the overall success rate was 78.1 and 66.7% in patients with atrioventricular nodal re-entry tachycardia or atrioventricular re-entry tachycardia, respectively. Using three-dimensional mapping, the overall success rate was 91.6 and 75%, respectively (p=ns). The use of three-dimensional mapping was associated with a reduction in cumulative air kerma and cumulative air kerma-area product of 76.4 and 67.3%, respectively (p<0.05). The use of three-dimensional mapping compared with the conventional fluoroscopy-guided method for cryoablation of right septal accessory pathways and atrioventricular nodal re-entry circuits in children was associated with a significant reduction in patient radiation dose without an increase in success rate.

  8. Environmental risk assessment of steel-making slags and the potential use of LD slag in mitigating methane emissions and the grain arsenic level in rice (Oryza sativa L.).

    PubMed

    Gwon, Hyo Suk; Khan, Muhammad Israr; Alam, Muhammad Ashraful; Das, Suvendu; Kim, Pil Joo

    2018-04-13

    Over the past decades, with increasing steel manufacturing, the huge amount of by-products (slags) generated need to be reused in an efficient way not only to reduce landfill slag sites but also for sustainable and eco-friendly agriculture. Our preliminary laboratory study revealed that compared to blast furnace slag, electric arc furnace slag and ladle furnace slag, the Linz-Donawitz converter (LD) slag markedly decreased CH 4 production rate and increased microbial activity. In the greenhouse experiment, the LD slag amendment (2.0 Mg ha -1 ) significantly (p < 0.05) increased grain yield by 10.3-15.2%, reduced CH 4 emissions by 17.8-24.0%, and decreased inorganic As concentrations in grain by 18.3-19.6%, compared to the unamended control. The increase in yield is attributed to the increased photosynthetic rates and increased availability of nutrients to the rice plant. Whereas, the decrease in CH 4 emissions could be due to the higher Fe availability in the slag amended soil, which acted as an alternate electron acceptor, thereby, suppressed CH 4 emissions. The more Fe-plaque formation which could adsorb more As and the competitive inhibition of As uptake with higher availability of Si could be the reason for the decrease in As uptake by rice cultivated with LD slag amendment. Copyright © 2018 Elsevier B.V. All rights reserved.

  9. Map-based molecular diversity, linkage disequilibrium and association mapping of fruit traits in melon

    USDA-ARS?s Scientific Manuscript database

    The wide phenotypic diversity, in melon fruits, is the result of consumer preferences combined with genotype fitness to the different agro-climatic zones. There is no sufficient information with respect to the extent of genetic divergence, population structure and linkage disequilibrium (LD) in mel...

  10. An Autosomal Genetic Linkage Map of the Sheep Genome

    PubMed Central

    Crawford, A. M.; Dodds, K. G.; Ede, A. J.; Pierson, C. A.; Montgomery, G. W.; Garmonsway, H. G.; Beattie, A. E.; Davies, K.; Maddox, J. F.; Kappes, S. W.; Stone, R. T.; Nguyen, T. C.; Penty, J. M.; Lord, E. A.; Broom, J. E.; Buitkamp, J.; Schwaiger, W.; Epplen, J. T.; Matthew, P.; Matthews, M. E.; Hulme, D. J.; Beh, K. J.; McGraw, R. A.; Beattie, C. W.

    1995-01-01

    We report the first extensive ovine genetic linkage map covering 2070 cM of the sheep genome. The map was generated from the linkage analysis of 246 polymorphic markers, in nine three-generation fullsib pedigrees, which make up the AgResearch International Mapping Flock. We have exploited many markers from cattle so that valuable comparisons between these two ruminant linkage maps can be made. The markers, used in the segregation analyses, comprised 86 anonymous microsatellite markers derived from the sheep genome, 126 anonymous microsatellites from cattle, one from deer, and 33 polymorphic markers of various types associated with known genes. The maximum number of informative meioses within the mapping flock was 222. The average number of informative meioses per marker was 140 (range 18-209). Linkage groups have been assigned to all 26 sheep autosomes. PMID:7498748

  11. Comparison of Sub-pixel Classification Approaches for Crop-specific Mapping

    EPA Science Inventory

    The Moderate Resolution Imaging Spectroradiometer (MODIS) data has been increasingly used for crop mapping and other agricultural applications. Phenology-based classification approaches using the NDVI (Normalized Difference Vegetation Index) 16-day composite (250 m) data product...

  12. Handling Data Skew in MapReduce Cluster by Using Partition Tuning

    PubMed

    Gao, Yufei; Zhou, Yanjie; Zhou, Bing; Shi, Lei; Zhang, Jiacai

    2017-01-01

    The healthcare industry has generated large amounts of data, and analyzing these has emerged as an important problem in recent years. The MapReduce programming model has been successfully used for big data analytics. However, data skew invariably occurs in big data analytics and seriously affects efficiency. To overcome the data skew problem in MapReduce, we have in the past proposed a data processing algorithm called Partition Tuning-based Skew Handling (PTSH). In comparison with the one-stage partitioning strategy used in the traditional MapReduce model, PTSH uses a two-stage strategy and the partition tuning method to disperse key-value pairs in virtual partitions and recombines each partition in case of data skew. The robustness and efficiency of the proposed algorithm were tested on a wide variety of simulated datasets and real healthcare datasets. The results showed that PTSH algorithm can handle data skew in MapReduce efficiently and improve the performance of MapReduce jobs in comparison with the native Hadoop, Closer, and locality-aware and fairness-aware key partitioning (LEEN). We also found that the time needed for rule extraction can be reduced significantly by adopting the PTSH algorithm, since it is more suitable for association rule mining (ARM) on healthcare data. © 2017 Yufei Gao et al.

  13. Handling Data Skew in MapReduce Cluster by Using Partition Tuning.

    PubMed

    Gao, Yufei; Zhou, Yanjie; Zhou, Bing; Shi, Lei; Zhang, Jiacai

    2017-01-01

    The healthcare industry has generated large amounts of data, and analyzing these has emerged as an important problem in recent years. The MapReduce programming model has been successfully used for big data analytics. However, data skew invariably occurs in big data analytics and seriously affects efficiency. To overcome the data skew problem in MapReduce, we have in the past proposed a data processing algorithm called Partition Tuning-based Skew Handling (PTSH). In comparison with the one-stage partitioning strategy used in the traditional MapReduce model, PTSH uses a two-stage strategy and the partition tuning method to disperse key-value pairs in virtual partitions and recombines each partition in case of data skew. The robustness and efficiency of the proposed algorithm were tested on a wide variety of simulated datasets and real healthcare datasets. The results showed that PTSH algorithm can handle data skew in MapReduce efficiently and improve the performance of MapReduce jobs in comparison with the native Hadoop, Closer, and locality-aware and fairness-aware key partitioning (LEEN). We also found that the time needed for rule extraction can be reduced significantly by adopting the PTSH algorithm, since it is more suitable for association rule mining (ARM) on healthcare data.

  14. Handling Data Skew in MapReduce Cluster by Using Partition Tuning

    PubMed Central

    Zhou, Yanjie; Zhou, Bing; Shi, Lei

    2017-01-01

    The healthcare industry has generated large amounts of data, and analyzing these has emerged as an important problem in recent years. The MapReduce programming model has been successfully used for big data analytics. However, data skew invariably occurs in big data analytics and seriously affects efficiency. To overcome the data skew problem in MapReduce, we have in the past proposed a data processing algorithm called Partition Tuning-based Skew Handling (PTSH). In comparison with the one-stage partitioning strategy used in the traditional MapReduce model, PTSH uses a two-stage strategy and the partition tuning method to disperse key-value pairs in virtual partitions and recombines each partition in case of data skew. The robustness and efficiency of the proposed algorithm were tested on a wide variety of simulated datasets and real healthcare datasets. The results showed that PTSH algorithm can handle data skew in MapReduce efficiently and improve the performance of MapReduce jobs in comparison with the native Hadoop, Closer, and locality-aware and fairness-aware key partitioning (LEEN). We also found that the time needed for rule extraction can be reduced significantly by adopting the PTSH algorithm, since it is more suitable for association rule mining (ARM) on healthcare data. PMID:29065568

  15. Diagnosis support system based on clinical guidelines: comparison between case-based fuzzy cognitive maps and Bayesian networks.

    PubMed

    Douali, Nassim; Csaba, Huszka; De Roo, Jos; Papageorgiou, Elpiniki I; Jaulent, Marie-Christine

    2014-01-01

    Several studies have described the prevalence and severity of diagnostic errors. Diagnostic errors can arise from cognitive, training, educational and other issues. Examples of cognitive issues include flawed reasoning, incomplete knowledge, faulty information gathering or interpretation, and inappropriate use of decision-making heuristics. We describe a new approach, case-based fuzzy cognitive maps, for medical diagnosis and evaluate it by comparison with Bayesian belief networks. We created a semantic web framework that supports the two reasoning methods. We used database of 174 anonymous patients from several European hospitals: 80 of the patients were female and 94 male with an average age 45±16 (average±stdev). Thirty of the 80 female patients were pregnant. For each patient, signs/symptoms/observables/age/sex were taken into account by the system. We used a statistical approach to compare the two methods. Copyright © 2013 Elsevier Ireland Ltd. All rights reserved.

  16. Mineral mapping in the Maherabad area, eastern Iran, using the HyMap remote sensing data

    NASA Astrophysics Data System (ADS)

    Molan, Yusuf Eshqi; Refahi, Davood; Tarashti, Ali Hoseinmardi

    2014-04-01

    This study applies matched filtering on the HyMap airborne hyperspectral data to obtain the distribution map of alteration minerals in the Maherabad area and uses virtual verification to verify the results. This paper also introduces "moving threshold" which tries to find an appropriate threshold value to convert gray scale images, produced by mapping methods, to target and background pixels. The Maherabad area, located in the eastern part of the Lut block, is a Cu-Au porphyry system in which quartz-sericite-pyrite, argillic and propylitic alteration are most common. Minimum noise fraction transform coupled with a pixel purity index was applied on the HyMap images to extract the endmembers of the alteration minerals, including kaolinite, montmorillonite, sericite (muscovite/illite), calcite, chlorite, epidote, and goethite. Since there was no access to any portable spectrometer and/or lab spectral measurements for the verification of the remote sensing imagery results, virtual verification achieved using the USGS spectral library and showed an agreement of 83.19%. The comparison between the results of the matched filtering and X-ray diffraction (XRD) analyses also showed an agreement of 56.13%.

  17. Adaptive filtering with the self-organizing map: a performance comparison.

    PubMed

    Barreto, Guilherme A; Souza, Luís Gustavo M

    2006-01-01

    In this paper we provide an in-depth evaluation of the SOM as a feasible tool for nonlinear adaptive filtering. A comprehensive survey of existing SOM-based and related architectures for learning input-output mappings is carried out and the application of these architectures to nonlinear adaptive filtering is formulated. Then, we introduce two simple procedures for building RBF-based nonlinear filters using the Vector-Quantized Temporal Associative Memory (VQTAM), a recently proposed method for learning dynamical input-output mappings using the SOM. The aforementioned SOM-based adaptive filters are compared with standard FIR/LMS and FIR/LMS-Newton linear transversal filters, as well as with powerful MLP-based filters in nonlinear channel equalization and inverse modeling tasks. The obtained results in both tasks indicate that SOM-based filters can consistently outperform powerful MLP-based ones.

  18. Genome-wide proteomics analysis on longissimus muscles in Qinchuan beef cattle.

    PubMed

    He, Hua; Chen, Si; Liang, Wei; Liu, Xiaolin

    2017-04-01

    To gain further insight into the molecular mechanism of bovine muscle development, we combined mass spectrometry characterization of proteins with Illumina deep sequencing of RNAs obtained from bovine longissimus muscle (LD) at prenatal and postnatal stages. For the proteomic study, each group of LD proteins was extracted and labeled using isobaric tags for relative and absolute quantitation (iTRAQ) method. Among the 1321 proteins identified from six samples, 390 proteins were differentially expressed in embryos at day 135 post-fertilization (Emb135d) vs. 30-month-old adult cattle (Emb135d vs. 30M) samples. Gene Ontology, Cluster of Orthologous Groups and Kyoto Encyclopedia of Genes and Genomes analyses were further conducted to better understand the different functions. Furthermore, we analyzed the relationship between transcript and protein regulation between samples by direct comparison of expression levels from transcriptomic and iTRAQ-based proteomics. Association results indicated that 1295 of 1321 proteins could be mapped to transcriptome sequencing data. This study provides the most comprehensive, targeted survey of bovine LD proteins to date and has shown the power of combining transcriptomic and proteomic approaches to provide molecular insights for understanding the developmental characteristics in bovine muscle, and even in other mammals. © 2016 Stichting International Foundation for Animal Genetics.

  19. Synoptic maps constructed from brightness observations of Thomson scattering by heliospheric electrons

    NASA Technical Reports Server (NTRS)

    Hick, P.; Jackson, B.; Schwenn, R.

    1991-01-01

    Observations of the Thomson scattering brightness by electrons in the inner heliosphere provide a means of probing the heliospheric electron distributions. An extensive data base of Thomson scattering observations, stretching over many years, is available from the zodiacal light photometers on board the two Helios spacecraft. A survey of these data is in progress, presenting these scattering intensities in the form of synoptic maps for successive Carrington rotations. The Thomson scattering maps reflect conditions at typically several tenths of an astronomical unit from the sun. Some representative examples from the survey in comparison with other solar/heliospheric data, such as in situ observations of the Helios plasma experiment and synoptic maps constructed from magnetic field, H alpha and K-coronameter data are presented. The comparison will provide some information about the extension of solar surface features into the inner heliosphere.

  20. A Comparison of Satellite-Derived Snow Maps with a Focus on Ephemeral Snow in North Carolina

    NASA Technical Reports Server (NTRS)

    Hall, Dorothy K.; Fuhrmann, Christopher M.; Perry, L. Baker; Riggs, George A.; Robinson, David A.; Foster, James L.

    2010-01-01

    In this paper, we focus on the attributes and limitations of four commonly-used daily snowcover products with respect to their ability to map ephemeral snow in central and eastern North Carolina. We show that the Moderate-Resolution Imaging Spectroradiometer (MODIS) fractional snow-cover maps can delineate the snow-covered area very well through the use of a fully-automated algorithm, but suffer from the limitation that cloud cover precludes mapping some ephemeral snow. The semi-automated Interactive Multi-sensor Snow and ice mapping system (IMS) and Rutgers Global Snow Lab (GSL) snow maps are often able to capture ephemeral snow cover because ground-station data are employed to develop the snow maps, The Rutgers GSL maps are based on the IMS maps. Finally, the Advanced Microwave Scanning Radiometer for EOS (AMSR-E) provides some good detail of snow-water equivalent especially in deeper snow, but may miss ephemeral snow cover because it is often very thin or wet; the AMSR-E maps also suffer from coarse spatial resolution. We conclude that the southeastern United States represents a good test region for validating the ability of satellite snow-cover maps to capture ephemeral snow cover,

  1. Linkage disequilibrium and association analysis of stripe rust resistance in wild emmer wheat (Triticum turgidum ssp. dicoccoides) population in Israel.

    PubMed

    Sela, Hanan; Ezrati, Smadar; Ben-Yehuda, Pnina; Manisterski, Jacob; Akhunov, Eduard; Dvorak, Jan; Breiman, Adina; Korol, Abraham

    2014-11-01

    Rapid LD decay in wild emmer population from Israel allows high-resolution association mapping. Known and putative new stripe rust resistance genes were found. Genome-wide association mapping (GWAM) is becoming an important tool for the discovery and mapping of loci underlying trait variation in crops, but in the wild relatives of crops the use of GWAM has been limited. Critical factors for the use of GWAM are the levels of linkage disequilibrium (LD) and genetic diversity in mapped populations, particularly in those of self-pollinating species. Here, we report LD estimation in a population of 128 accessions of self-pollinating wild emmer, Triticum turgidum ssp. dicoccoides, the progenitor of cultivated wheat, collected in Israel. LD decayed fast along wild emmer chromosomes and reached the background level within 1 cM. We employed GWAM for the discovery and mapping of genes for resistance to three isolates of Puccinia striiformis, the causative agent of wheat stripe rust. The wild emmer population was genotyped with the wheat iSelect assay including 8643 gene-associated SNP markers (wheat 9K Infinium) of which 2,278 were polymorphic. The significance of association between stripe rust resistance and each of the polymorphic SNP was tested using mixed linear model implemented in EMMA software. The model produced satisfactory results and uncovered four significant associations on chromosome arms 1BS, 1BL and 3AL. The locus on 1BS was located in a region known to contain stripe rust resistance genes. These results show that GWAM is an effective strategy for gene discovery and mapping in wild emmer that will accelerate the utilization of this genetic resource in wheat breeding.

  2. A trace map comparison algorithm for the discrete fracture network models of rock masses

    NASA Astrophysics Data System (ADS)

    Han, Shuai; Wang, Gang; Li, Mingchao

    2018-06-01

    Discrete fracture networks (DFN) are widely used to build refined geological models. However, validating whether a refined model can match to reality is a crucial problem, concerning whether the model can be used for analysis. The current validation methods include numerical validation and graphical validation. However, the graphical validation, aiming at estimating the similarity between a simulated trace map and the real trace map by visual observation, is subjective. In this paper, an algorithm for the graphical validation of DFN is set up. Four main indicators, including total gray, gray grade curve, characteristic direction and gray density distribution curve, are presented to assess the similarity between two trace maps. A modified Radon transform and loop cosine similarity are presented based on Radon transform and cosine similarity respectively. Besides, how to use Bézier curve to reduce the edge effect is described. Finally, a case study shows that the new algorithm can effectively distinguish which simulated trace map is more similar to the real trace map.

  3. Learning Disabilities and Anxiety: A Meta-Analysis

    ERIC Educational Resources Information Center

    Nelson, Jason M.; Harwood, Hannah

    2011-01-01

    This article presents the results of a meta-analysis of the empirical literature on anxious symptomatology among school-aged students with learning disabilities (LD) in comparison to their non-LD peers. Fifty-eight studies met inclusion criteria. Results indicate that students with LD had higher mean scores on measures of anxiety than did non-LD…

  4. Efficient Posterior Probability Mapping Using Savage-Dickey Ratios

    PubMed Central

    Penny, William D.; Ridgway, Gerard R.

    2013-01-01

    Statistical Parametric Mapping (SPM) is the dominant paradigm for mass-univariate analysis of neuroimaging data. More recently, a Bayesian approach termed Posterior Probability Mapping (PPM) has been proposed as an alternative. PPM offers two advantages: (i) inferences can be made about effect size thus lending a precise physiological meaning to activated regions, (ii) regions can be declared inactive. This latter facility is most parsimoniously provided by PPMs based on Bayesian model comparisons. To date these comparisons have been implemented by an Independent Model Optimization (IMO) procedure which separately fits null and alternative models. This paper proposes a more computationally efficient procedure based on Savage-Dickey approximations to the Bayes factor, and Taylor-series approximations to the voxel-wise posterior covariance matrices. Simulations show the accuracy of this Savage-Dickey-Taylor (SDT) method to be comparable to that of IMO. Results on fMRI data show excellent agreement between SDT and IMO for second-level models, and reasonable agreement for first-level models. This Savage-Dickey test is a Bayesian analogue of the classical SPM-F and allows users to implement model comparison in a truly interactive manner. PMID:23533640

  5. Comparison of 1:1 and 1:m CSCL Environment for Collaborative Concept Mapping

    ERIC Educational Resources Information Center

    Lin, C.-P.; Wong, L.-H.; Shao, Y.-J.

    2012-01-01

    This paper reports an investigation into the effects of collaborative concept mapping in a digital learning environment, in terms of students' overall learning gains, knowledge retention, quality of student artefacts (the collaboratively created concept maps), interactive patterns, and learning perceptions. Sixty-four 12-year-old students from two…

  6. Face recognition using 3D facial shape and color map information: comparison and combination

    NASA Astrophysics Data System (ADS)

    Godil, Afzal; Ressler, Sandy; Grother, Patrick

    2004-08-01

    In this paper, we investigate the use of 3D surface geometry for face recognition and compare it to one based on color map information. The 3D surface and color map data are from the CAESAR anthropometric database. We find that the recognition performance is not very different between 3D surface and color map information using a principal component analysis algorithm. We also discuss the different techniques for the combination of the 3D surface and color map information for multi-modal recognition by using different fusion approaches and show that there is significant improvement in results. The effectiveness of various techniques is compared and evaluated on a dataset with 200 subjects in two different positions.

  7. Mechanical and wear characteristics of epoxy composites filled with industrial wastes: A comparative study

    NASA Astrophysics Data System (ADS)

    Purohit, A.; Satapathy, A.

    2017-02-01

    Use of industrial wastes, such as slag and sludge particles, as filler in polymers is not very common in the field of composite research. Therefore in this paper, a comparison of mechanical characteristics of epoxy based composites filled with LD sludge, BF slag and LD slag (wastes generated in iron and steel industries) were presented. A comparative study among these composites in regard to their dry sliding wear characteristics under similar test conditions was also included. Composites with different weight proportions (0, 5, 10, 15 and 20 wt.%) of LD sludge were fabricated by solution casting technique. Mechanical properties were evaluated as per ASTM test standards and sliding wear test was performed following a design of experiment approach based on Taguchi’s orthogonal array. The test results for epoxy-LD sludge composites were compared with those of epoxy-BF slag and epoxy-LD slag composites reported by previous investigators. The comparison reveals that epoxy filled with LD sludge exhibits superior mechanical and wear characteristics among the three types of composites considered in this study.

  8. Increased expression of LD1 genes transcribed by RNA polymerase I in Leishmania donovani as a result of duplication into the rRNA gene locus

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

    Lodes, M.J.; Merlin, G.; DeVos, T.

    1995-12-01

    This report investigates the duplication of two LD1 genes into the rRNA locus and the resultant transcription by RNA polymerase I, which has a faster transcription rate than that of RNA polymerase II. This was conducted using a 2.2-Mb chromosome in Leishmania donovani. 55 refs., 6 figs.

  9. Error and Uncertainty in the Accuracy Assessment of Land Cover Maps

    NASA Astrophysics Data System (ADS)

    Sarmento, Pedro Alexandre Reis

    Traditionally the accuracy assessment of land cover maps is performed through the comparison of these maps with a reference database, which is intended to represent the "real" land cover, being this comparison reported with the thematic accuracy measures through confusion matrixes. Although, these reference databases are also a representation of reality, containing errors due to the human uncertainty in the assignment of the land cover class that best characterizes a certain area, causing bias in the thematic accuracy measures that are reported to the end users of these maps. The main goal of this dissertation is to develop a methodology that allows the integration of human uncertainty present in reference databases in the accuracy assessment of land cover maps, and analyse the impacts that uncertainty may have in the thematic accuracy measures reported to the end users of land cover maps. The utility of the inclusion of human uncertainty in the accuracy assessment of land cover maps is investigated. Specifically we studied the utility of fuzzy sets theory, more precisely of fuzzy arithmetic, for a better understanding of human uncertainty associated to the elaboration of reference databases, and their impacts in the thematic accuracy measures that are derived from confusion matrixes. For this purpose linguistic values transformed in fuzzy intervals that address the uncertainty in the elaboration of reference databases were used to compute fuzzy confusion matrixes. The proposed methodology is illustrated using a case study in which the accuracy assessment of a land cover map for Continental Portugal derived from Medium Resolution Imaging Spectrometer (MERIS) is made. The obtained results demonstrate that the inclusion of human uncertainty in reference databases provides much more information about the quality of land cover maps, when compared with the traditional approach of accuracy assessment of land cover maps. None

  10. Large-Scale Topographic Features on Venus: A Comparison by Geological Mapping in Four Quadrangles

    NASA Astrophysics Data System (ADS)

    Ivanov, M. A.; Head, J. W.

    2002-05-01

    We have conducted geological mapping in four quadrangles under the NASA program of geological mapping of Venus. Two quadrangles portray large equidimensional lowlands (Lavinia, V55, and Atalanta, V4, Planitiae) and two more areas are characterized by a large corona (Quetzalpetlatl corona, QC, V66), and Lakshmi Planum (LP, V7). Geological mapping of these large-scale features allows for their broad comparisons by both sets of typical structures and sequences of events. The Planitiae share a number of similar characteristics. (1) Lavinia and Atalanta are broad quasi-circular lowlands 1-2 km deep. (2) The central portions of the basins lack both coronae and large volcanoes. (3) The belts of tectonic deformation characterize the central portions of the basins. (4) There is evidence in both lowlands that they subsided predominantly before the emplacement of regional plains. (5) Recent volcanism is shifted toward the periphery of the basins and occurred after or at the late stages the formation of the lowlands. The above characteristics of the lowlands are better reconciled with the scenario in which their formation is due to a broad-scale mantle downwelling that started relatively early in the visible geologic history of Venus. The QC and LP are elevated structures roughly comparable in size. The formation of QC is commonly attributed to large-scale mantle positive diapirism while the formation of LP remains controversial and both mantle upwelling and downwelling models exist. QC and LP have similar characteristics such as broadly circular shape in plan-view, association with regional highlands, associated relatively young volcanism, and a topographic moat bordering both QC and LP from the North. Despite the above similarities, the striking differences between QC and LP are obvious too. LP is crowned by the highest mountain ranges on Venus and QC is bordered from the North by a common belt of ridges. LP itself makes up a regional highland within the upland of Ishtar

  11. Relationships among Behavioral Profiles, Reading Performance, and Disability Labels: A Latent Class Analysis of Students in the ED, LD, and OHI Special Education Categories

    ERIC Educational Resources Information Center

    Weingarten, Zachary

    2018-01-01

    The aim of this study was to explore the variation in student behavior across the ED, LD, and OHI disability categories and to examine demographic, behavioral, and academic factors that may place students at risk for negative outcomes. This study used teachers' rating of students' in-class behavior to identify latent classes of students in the ED,…

  12. Near real-time skin deformation mapping

    NASA Astrophysics Data System (ADS)

    Kacenjar, Steve; Chen, Suzie; Jafri, Madiha; Wall, Brian; Pedersen, Richard; Bezozo, Richard

    2013-02-01

    A novel in vivo approach is described that provides large area mapping of the mechanical properties of the skin in human patients. Such information is important in the understanding of skin health, cosmetic surgery[1], aging, and impacts of sun exposure. Currently, several methods have been developed to estimate the local biomechanical properties of the skin, including the use of a physical biopsy of local areas of the skin (in vitro methods) [2, 3, and 4], and also the use of non-invasive methods (in vivo) [5, 6, and 7]. All such methods examine localized areas of the skin. Our approach examines the local elastic properties via the generation of field displacement maps of the skin created using time-sequence imaging [9] with 2D digital imaging correlation (DIC) [10]. In this approach, large areas of the skin are reviewed rapidly, and skin displacement maps are generated showing the contour maps of skin deformation. These maps are then used to precisely register skin images for purposes of diagnostic comparison. This paper reports on our mapping and registration approach, and demonstrates its ability to accurately measure the skin deformation through a described nulling interpolation process. The result of local translational DIC alignment is compared using this interpolation process. The effectiveness of the approach is reported in terms of residual RMS, image entropy measures, and differential segmented regional errors.

  13. Magnetic Multi-Scale Mapping to Characterize Anthropogenic Targets

    NASA Astrophysics Data System (ADS)

    Le Maire, P.; Munschy, M.

    2017-12-01

    The discovery of buried anthropic objects on construction sites can cause delays and/or dangers for workers and for the public. Indeed, every year 500 tons of Unexploded-ordnance are discovered in France. Magnetic measurements are useful to localize magnetized objects. Moreover, it is the cheapest geophysical method which does not impact environment and which is relatively fast to perform. Fluxgate magnetometers (three components) are used to measure magnetic properties bellow the ground. These magnetic sensors are not absolute, so they need to be calibrated before the onset of the measurements. The advantage is that they allow magnetic compensation of the equipment attached to the sensor. So the choice of this kind sensor gives the opportunity to install the equipment aboard different magnetized supports: boat, quad bike, unmanned aerial vehicle, aircraft,... Indeed, this methodology permits to perform magnetic mapping with different scale and different elevation above ground level. An old French aerial military plant was chosen to perform this multi-scale approach. The advantage of the site is that it contains a lot of different targets with variable sizes and depth, e.g. buildings, unexploded-ordnances of the two world wars, trenches, pipes,… By comparison between the different magnetic anomaly maps at different elevations some of the geometric parameters of the magnetic sources can be characterized. The comparison between measured maps at different elevations and the prolonged map highlights the maximum distance for the target's detection (figure).

  14. An autosomal genetic linkage map of the sheep genome

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

    Crawford, A.M.; Ede, A.J.; Pierson, C.A.

    1995-06-01

    We report the first extensive ovine genetic linkage map covering 2070 cM of the sheep genome. The map was generated from the linkage analysis of 246 polymorphic markers, in nine three-generation full-sib pedigrees, which make up the AgResearch International Mapping Flock. We have exploited many markers from cattle so that valuable comparisons between these two ruminant linkage maps can be made. The markers, used in the segregation analyses, comprised 86 anonymous microsatellite markers derived from the sheep genome, 126 anonymous microsatellites from cattle, one from deer, and 33 polymorphic markers of various types associated with known genes. The maximum numbermore » of informative meioses within the mapping flock was 22. The average number of informative meioses per marker was 140 (range 18-209). Linkage groups have been assigned to all 26 sheep autosomes. 102 refs., 8 figs., 5 tabs.« less

  15. Preliminary map of temperature gradients in the conterminous United States

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

    Guffanti, M.; Nathenson, M.

    1980-09-01

    Temperature gradients have been determined from temperature/depth measurements made in drill holes deeper than 600 m and used in the construction of a temperature-gradient map of the conterminous United States. The map displays temperature gradients (in /sup 0/C/km) that can be expected to exist regionally in a conductive thermal regime to a depth of 2 km. The major difference between this map and the AAPG-USGS temperature-gradient map is in the midcontinental region where the AAPG-USGS map does not demarcate a division between colder eastern and warmer western thermal regimes. A comparison with the heat-flow map of Sass et al. (1980)more » indicates that temperature gradients commonly reflect regional heat flow, and the gross east-west division of the United States on the basis of heat flow is also expressed by temperature gradient.« less

  16. Land use and land cover mapping: City of Palm Bay, Florida

    NASA Technical Reports Server (NTRS)

    Barile, D. D.; Pierce, R.

    1977-01-01

    Two different computer systems were compared for use in making land use and land cover maps. The Honeywell 635 with the LANDSAT signature development program (LSDP) produced a map depicting general patterns, but themes were difficult to classify as specific land use. Urban areas were unclassified. The General Electric Image 100 produced a map depicting eight land cover categories classifying 68 percent of the total area. Ground truth, LSDP, and Image 100 maps were all made to the same scale for comparison. LSDP agreed with the ground truth 60 percent and 64 percent within the two test areas compared and Image 100 was in agreement 70 percent and 80 percent.

  17. Comparison of manually produced and automated cross country movement maps using digital image processing techniques

    NASA Technical Reports Server (NTRS)

    Wynn, L. K.

    1985-01-01

    The Image-Based Information System (IBIS) was used to automate the cross country movement (CCM) mapping model developed by the Defense Mapping Agency (DMA). Existing terrain factor overlays and a CCM map, produced by DMA for the Fort Lewis, Washington area, were digitized and reformatted into geometrically registered images. Terrain factor data from Slope, Soils, and Vegetation overlays were entered into IBIS, and were then combined utilizing IBIS-programmed equations to implement the DMA CCM model. The resulting IBIS-generated CCM map was then compared with the digitized manually produced map to test similarity. The numbers of pixels comprising each CCM region were compared between the two map images, and percent agreement between each two regional counts was computed. The mean percent agreement equalled 86.21%, with an areally weighted standard deviation of 11.11%. Calculation of Pearson's correlation coefficient yielded +9.997. In some cases, the IBIS-calculated map code differed from the DMA codes: analysis revealed that IBIS had calculated the codes correctly. These highly positive results demonstrate the power and accuracy of IBIS in automating models which synthesize a variety of thematic geographic data.

  18. Mapping between 6 Multiattribute Utility Instruments.

    PubMed

    Chen, Gang; Khan, Munir A; Iezzi, Angelo; Ratcliffe, Julie; Richardson, Jeff

    2016-02-01

    Cost-utility analyses commonly employ a multiattribute utility (MAU) instrument to estimate the health state utilities, which are needed to calculate quality-adjusted life years. Different MAU instruments predict significantly different utilities, which makes comparison of results from different evaluation studies problematical. This article presents mapping functions ("crosswalks") from 6 MAU instruments (EQ-5D-5L, SF-6D, Health Utilities Index 3 [HUI 3], 15D, Quality of Well-Being [QWB], and Assessment of Quality of Life 8D [AQoL-8D]) to each of the other 5 instruments in the study: a total of 30 mapping functions. Data were obtained from a multi-instrument comparison survey of the public and patients in 7 disease areas conducted in 6 countries (Australia, Canada, Germany, Norway, United Kingdom, and United States). The 8022 respondents were administered each of the 6 study instruments. Mapping equations between each instrument pair were estimated using 4 econometric techniques: ordinary least squares, generalized linear model, censored least absolute deviations, and, for the first time, a robust MM-estimator. Goodness-of-fit indicators for each of the results are within the range of published studies. Transformations reduced discrepancies between predicted utilities. Incremental utilities, which determine the value of quality-related health benefits, are almost perfectly aligned at the sample means. Transformations presented here align the measurement scales of MAU instruments. Their use will increase confidence in the comparability of evaluation studies, which have employed different MAU instruments. © The Author(s) 2015.

  19. A Study of the School to Work Transition for Learning Disabled Students and the Learning Disabled Adult in Society in the Netherlands and Denmark. Final Report, April 14, 1984 to May 26, 1984.

    ERIC Educational Resources Information Center

    Gerber, Paul Jay

    The report summarizes findings of 6 weeks spent in the Netherlands and Denmark to study services provided to learning disabled (LD) young adults and adults. The school to work transition for LD students is examined along with the LD adult in society, and comparisons are made between Dutch and Danish approaches. The Dutch system, highly structured…

  20. Engaging adolescents with LD in higher order thinking about history concepts using integrated content enhancement routines.

    PubMed

    Bulgren, Janis; Deshler, Donald D; Lenz, B Keith

    2007-01-01

    The understanding and use of historical concepts specified in national history standards pose many challenges to students. These challenges include both the acquisition of content knowledge and the use of that knowledge in ways that require higher order thinking. All students, including adolescents with learning disabilities (LD), are expected to understand and use concepts of history to pass high-stakes assessments and to participate meaningfully in a democratic society. This article describes Content Enhancement Routines (CERs) to illustrate instructional planning, teaching, and assessing for higher order thinking with examples from an American history unit. Research on the individual components of Content Enhancement Routines will be illustrated with data from 1 of the routines. The potential use of integrated sets of materials and procedures across grade levels and content areas will be discussed.

  1. Development and validation of a complementary map to enhance the existing 1998 to 2008 Abbreviated Injury Scale map

    PubMed Central

    2011-01-01

    Introduction Many trauma registries have used the Abbreviated Injury Scale 1990 Revision Update 98 (AIS98) to classify injuries. In the current AIS version (Abbreviated Injury Scale 2005 Update 2008 - AIS08), injury classification and specificity differ substantially from AIS98, and the mapping tools provided in the AIS08 dictionary are incomplete. As a result, data from different AIS versions cannot currently be compared. The aim of this study was to develop an additional AIS98 to AIS08 mapping tool to complement the current AIS dictionary map, and then to evaluate the completed map (produced by combining these two maps) using double-coded data. The value of additional information provided by free text descriptions accompanying assigned codes was also assessed. Methods Using a modified Delphi process, a panel of expert AIS coders established plausible AIS08 equivalents for the 153 AIS98 codes which currently have no AIS08 map. A series of major trauma patients whose injuries had been double-coded in AIS98 and AIS08 was used to assess the maps; both of the AIS datasets had already been mapped to another AIS version using the AIS dictionary maps. Following application of the completed (enhanced) map with or without free text evaluation, up to six AIS codes were available for each injury. Datasets were assessed for agreement in injury severity measures, and the relative performances of the maps in accurately describing the trauma population were evaluated. Results The double-coded injuries sustained by 109 patients were used to assess the maps. For data conversion from AIS98, both the enhanced map and the enhanced map with free text description resulted in higher levels of accuracy and agreement with directly coded AIS08 data than the currently available dictionary map. Paired comparisons demonstrated significant differences between direct coding and the dictionary maps, but not with either of the enhanced maps. Conclusions The newly-developed AIS98 to AIS08

  2. Development and validation of a complementary map to enhance the existing 1998 to 2008 Abbreviated Injury Scale map.

    PubMed

    Palmer, Cameron S; Franklyn, Melanie; Read-Allsopp, Christine; McLellan, Susan; Niggemeyer, Louise E

    2011-05-08

    Many trauma registries have used the Abbreviated Injury Scale 1990 Revision Update 98 (AIS98) to classify injuries. In the current AIS version (Abbreviated Injury Scale 2005 Update 2008 - AIS08), injury classification and specificity differ substantially from AIS98, and the mapping tools provided in the AIS08 dictionary are incomplete. As a result, data from different AIS versions cannot currently be compared. The aim of this study was to develop an additional AIS98 to AIS08 mapping tool to complement the current AIS dictionary map, and then to evaluate the completed map (produced by combining these two maps) using double-coded data. The value of additional information provided by free text descriptions accompanying assigned codes was also assessed. Using a modified Delphi process, a panel of expert AIS coders established plausible AIS08 equivalents for the 153 AIS98 codes which currently have no AIS08 map. A series of major trauma patients whose injuries had been double-coded in AIS98 and AIS08 was used to assess the maps; both of the AIS datasets had already been mapped to another AIS version using the AIS dictionary maps. Following application of the completed (enhanced) map with or without free text evaluation, up to six AIS codes were available for each injury. Datasets were assessed for agreement in injury severity measures, and the relative performances of the maps in accurately describing the trauma population were evaluated. The double-coded injuries sustained by 109 patients were used to assess the maps. For data conversion from AIS98, both the enhanced map and the enhanced map with free text description resulted in higher levels of accuracy and agreement with directly coded AIS08 data than the currently available dictionary map. Paired comparisons demonstrated significant differences between direct coding and the dictionary maps, but not with either of the enhanced maps. The newly-developed AIS98 to AIS08 complementary map enabled transformation of the

  3. Mapping land use changes in the carboniferous region of Santa Catarina, report 2

    NASA Technical Reports Server (NTRS)

    Valeriano, D. D. (Principal Investigator); Bitencourtpereira, M. D.

    1983-01-01

    The techniques applied to MSS-LANDSAT data in the land-use mapping of Criciuma region (Santa Catarina state, Brazil) are presented along with the results of a classification accuracy estimate tested on the resulting map. The MSS-LANDSAT data digital processing involves noise suppression, features selection and a hybrid classifier. The accuracy test is made through comparisons with aerial photographs of sampled points. The utilization of digital processing to map the classes agricultural lands, forest lands and urban areas is recommended, while the coal refuse areas should be mapped visually.

  4. Mapping 180° polar domains using electron backscatter diffraction and dynamical scattering simulations

    DOE PAGES

    Burch, Matthew J.; Fancher, Chris M.; Patala, Srikanth; ...

    2016-11-18

    A novel technique, which directly and nondestructively maps polar domains using electron backscatter diffraction (EBSD) is described and demonstrated. Through dynamical diffraction simulations and quantitative comparison to experimental EBSD patterns, the absolute orientation of a non-centrosymmetric crystal can be determined. With this information, the polar domains of a material can be mapped. The technique is demonstrated by mapping the non-ferroelastic, or 180°, ferroelectric domains in periodically poled LiNbO 3 single crystals. Furthermore, the authors demonstrate the possibility of mapping polarity using this technique in other polar materials system.

  5. Leadership Development and Language Learning: A Foundational Framework

    ERIC Educational Resources Information Center

    Long, Sheri Spaine; Derby, LeAnn; Scharff, Lauren; LeLoup, Jean W.; Uribe, Daniel

    2015-01-01

    The ACTFL [American Council on the Teaching of Foreign Languages] 21st Century Skills Map (2011) proposes incorporating "leadership and responsibility" into language learning (LL). This study offers a foundational framework for combined LL and leadership development (LD) and contains a snapshot of the presence of LD in the language…

  6. Comparison results of forest cover mapping of Peninsular Malaysia using geospatial technology

    NASA Astrophysics Data System (ADS)

    Hamid, Wan Abdul; Abd Rahman, Shukri B. Wan

    2016-06-01

    Climate change and global warming transpire due to several factors. Among them is deforestation which occur mostly in developing countries including Malaysia where forested areas are converted to other land use for tangible economic returns and to a smaller extent, as subsistence for local communities. As a cause for concern, efforts have been taken by the World Resource Institute (WRI) and World Wildlife Fund (WWF) to monitor forest loss using geospatial technology - interpreting time-based remote sensing imageries and producing statistics of forested areas lost since 2001. In Peninsular Malaysia, the Forestry Department of Peninsular Malaysia(FDPM) has conducted forest cover mapping for the region using the same technology since 2011, producing GIS maps for 2009-2010,2011-2012,2013-2014 and 2015. This paper focuses on the comparative study of the results generated from WRI,WWF and FDPM interpretations between 2010 and 2015, the methodologies used, the similarities and differences, challenges and recommendations for future enhancement of forest cover mapping technique.

  7. Comparison of Image Restoration Methods for Lunar Epithermal Neutron Emission Mapping

    NASA Technical Reports Server (NTRS)

    McClanahan, T. P.; Ivatury, V.; Milikh, G.; Nandikotkur, G.; Puetter, R. C.; Sagdeev, R. Z.; Usikov, D.; Mitrofanov, I. G.

    2009-01-01

    Orbital measurements of neutrons by the Lunar Exploring Neutron Detector (LEND) onboard the Lunar Reconnaissance Orbiter are being used to quantify the spatial distribution of near surface hydrogen (H). Inferred H concentration maps have low signal-to-noise (SN) and image restoration (IR) techniques are being studied to enhance results. A single-blind. two-phase study is described in which four teams of researchers independently developed image restoration techniques optimized for LEND data. Synthetic lunar epithermal neutron emission maps were derived from LEND simulations. These data were used as ground truth to determine the relative quantitative performance of the IR methods vs. a default denoising (smoothing) technique. We review and used factors influencing orbital remote sensing of neutrons emitted from the lunar surface to develop a database of synthetic "true" maps for performance evaluation. A prior independent training phase was implemented for each technique to assure methods were optimized before the blind trial. Method performance was determined using several regional root-mean-square error metrics specific to epithermal signals of interest. Results indicate unbiased IR methods realize only small signal gains in most of the tested metrics. This suggests other physically based modeling assumptions are required to produce appreciable signal gains in similar low SN IR applications.

  8. Cellular and humoral immune responses in sheep vaccinated with candidate antigens MAP2698c and MAP3567 from Mycobacterium avium subspecies paratuberculosis

    PubMed Central

    Gurung, Ratna B.; Purdie, Auriol C.; Whittington, Richard J.; Begg, Douglas J.

    2014-01-01

    Control of Johne's disease, caused by Mycobacterium avium subspecies paratuberculosis (MAP) in ruminants using commercially available vaccine reduces production losses, mortality, fecal shedding and histopathological lesions but does not provide complete protection from infection and interferes with serological diagnosis of Johne's disease and bovine tuberculosis. At this time no recombinant antigens have been found to provide superior protection compared to whole killed or live-attenuated MAP vaccines. Therefore, there is a need to evaluate more candidate MAP antigens. In this study recombinant MAP antigens MAP2698c and MAP3567 were formulated with four different MONTANIDE™ (ISA 50V2, 61VG, 71VG, and 201VG) adjuvants and evaluated for their ability to produce specific immune responses in vaccinated sheep. The cellular immune response was measured with an interferon-gamma (IFN-γ) release assay and the humoral immune response was measured by antibody detection enzyme linked immunosorbent assay. Recombinant vaccine formulation with the antigen MAP2698c and MONTANIDE™ ISA 201VG adjuvant produced strong whole-MAP as well as MAP2698c-specific IFN-γ responses in a high proportion of the vaccinated sheep. The formulation caused less severe injection site lesions in comparison to other formulations. The findings from this study suggest that the MAP2698c + 201VG should be evaluated in a challenge trial to determine the efficacy of this vaccine candidate. PMID:25077074

  9. A Genetic Linkage Map of the Hermaphrodite Teleost Fish Sparus aurata L.

    PubMed Central

    Franch, Rafaella; Louro, Bruno; Tsalavouta, Matina; Chatziplis, Dimitris; Tsigenopoulos, Costas S.; Sarropoulou, Elena; Antonello, Jenny; Magoulas, Andonis; Mylonas, Constantinos C.; Babbucci, Massimiliano; Patarnello, Tomaso; Power, Deborah M.; Kotoulas, Giorgos; Bargelloni, Luca

    2006-01-01

    The gilthead sea bream (Sparus aurata L.) is a marine fish of great importance for fisheries and aquaculture. It has also a peculiar sex-determination system, being a protandrous hermaphrodite. Here we report the construction of a first-generation genetic linkage map for S. aurata, based on 204 microsatellite markers. Twenty-six linkage groups (LG) were found. The total map length was 1241.9 cM. The ratio between sex-specific map lengths was 1:1.2 (male:female). Comparison with a preliminary radiation hybrid (RH) map reveals a good concordance, as all markers located in a single LG are located in a single RH group, except for Ad-25 and CId-31. Comparison with the Tetraodon nigroviridis genome revealed a considerable number of evolutionary conserved regions (ECRs) between the two species. The mean size of ECRs was 182 bp (sequence identity 60–90%). Forty-one ECRs have a known chromosomal location in the pufferfish genome. Despite the limited number of anchoring points, significant syntenic relationships were found. The linkage map presented here provides a robust comparative framework for QTL analysis in S. aurata and is a step toward the identification of genetic loci involved both in the determination of economically important traits and in the individual timing of sex reversal. PMID:16951080

  10. Chapter 8 - Mapping existing vegetation composition and structure for the LANDFIRE Prototype Project

    Treesearch

    Zhiliang Zhu; James Vogelmann; Donald Ohlen; Jay Kost; Xuexia Chen; Brian Tolk

    2006-01-01

    The Landscape Fire and Resource Management Planning Tools Prototype Project, or LANDFIRE Prototype Project, required the mapping of existing vegetation composition (cover type) and structural stages at a 30-m spatial resolution to provide baseline vegetation data for the development of wildland fuel maps and for comparison to simulated historical vegetation reference...

  11. Children’s Mapping between Non-Symbolic and Symbolic Numerical Magnitudes and Its Association with Timed and Untimed Tests of Mathematics Achievement

    PubMed Central

    Brankaer, Carmen; Ghesquière, Pol; De Smedt, Bert

    2014-01-01

    The ability to map between non-symbolic numerical magnitudes and Arabic numerals has been put forward as a key factor in children’s mathematical development. This mapping ability has been mainly examined indirectly by looking at children’s performance on a symbolic magnitude comparison task. The present study investigated mapping in a more direct way by using a task in which children had to choose which of two choice quantities (Arabic digits or dot arrays) matched the target quantity (dot array or Arabic digit), thereby focusing on small quantities ranging from 1 to 9. We aimed to determine the development of mapping over time and its relation to mathematics achievement. Participants were 36 first graders (M = 6 years 8 months) and 46 third graders (M = 8 years 8 months) who all completed mapping tasks, symbolic and non-symbolic magnitude comparison tasks and standardized timed and untimed tests of mathematics achievement. Findings revealed that children are able to map between non-symbolic and symbolic representations and that this mapping ability develops over time. Moreover, we found that children’s mapping ability is related to timed and untimed measures of mathematics achievement, over and above the variance accounted for by their numerical magnitude comparison skills. PMID:24699664

  12. On testing for spatial correspondence between maps of human brain structure and function.

    PubMed

    Alexander-Bloch, Aaron F; Shou, Haochang; Liu, Siyuan; Satterthwaite, Theodore D; Glahn, David C; Shinohara, Russell T; Vandekar, Simon N; Raznahan, Armin

    2018-06-01

    A critical issue in many neuroimaging studies is the comparison between brain maps. Nonetheless, it remains unclear how one should test hypotheses focused on the overlap or spatial correspondence between two or more brain maps. This "correspondence problem" affects, for example, the interpretation of comparisons between task-based patterns of functional activation, resting-state networks or modules, and neuroanatomical landmarks. To date, this problem has been addressed with remarkable variability in terms of methodological approaches and statistical rigor. In this paper, we address the correspondence problem using a spatial permutation framework to generate null models of overlap by applying random rotations to spherical representations of the cortical surface, an approach for which we also provide a theoretical statistical foundation. We use this method to derive clusters of cognitive functions that are correlated in terms of their functional neuroatomical substrates. In addition, using publicly available data, we formally demonstrate the correspondence between maps of task-based functional activity, resting-state fMRI networks and gyral-based anatomical landmarks. We provide open-access code to implement the methods presented for two commonly-used tools for surface based cortical analysis (https://www.github.com/spin-test). This spatial permutation approach constitutes a useful advance over widely-used methods for the comparison of cortical maps, thereby opening new possibilities for the integration of diverse neuroimaging data. Copyright © 2018 Elsevier Inc. All rights reserved.

  13. Population-genetic comparison of the Sorbian isolate population in Germany with the German KORA population using genome-wide SNP arrays

    PubMed Central

    2011-01-01

    Background The Sorbs are an ethnic minority in Germany with putative genetic isolation, making the population interesting for disease mapping. A sample of N = 977 Sorbs is currently analysed in several genome-wide meta-analyses. Since genetic differences between populations are a major confounding factor in genetic meta-analyses, we compare the Sorbs with the German outbred population of the KORA F3 study (N = 1644) and other publically available European HapMap populations by population genetic means. We also aim to separate effects of over-sampling of families in the Sorbs sample from effects of genetic isolation and compare the power of genetic association studies between the samples. Results The degree of relatedness was significantly higher in the Sorbs. Principal components analysis revealed a west to east clustering of KORA individuals born in Germany, KORA individuals born in Poland or Czech Republic, Half-Sorbs (less than four Sorbian grandparents) and Full-Sorbs. The Sorbs cluster is nearest to the cluster of KORA individuals born in Poland. The number of rare SNPs is significantly higher in the Sorbs sample. FST between KORA and Sorbs is an order of magnitude higher than between different regions in Germany. Compared to the other populations, Sorbs show a higher proportion of individuals with runs of homozygosity between 2.5 Mb and 5 Mb. Linkage disequilibrium (LD) at longer range is also slightly increased but this has no effect on the power of association studies. Oversampling of families in the Sorbs sample causes detectable bias regarding higher FST values and higher LD but the effect is an order of magnitude smaller than the observed differences between KORA and Sorbs. Relatedness in the Sorbs also influenced the power of uncorrected association analyses. Conclusions Sorbs show signs of genetic isolation which cannot be explained by over-sampling of relatives, but the effects are moderate in size. The Slavonic origin of the Sorbs is still

  14. Chromhome: A rich internet application for accessing comparative chromosome homology maps

    PubMed Central

    Nagarajan, Sridevi; Rens, Willem; Stalker, James; Cox, Tony; Ferguson-Smith, Malcolm A

    2008-01-01

    Background Comparative genomics has become a significant research area in recent years, following the availability of a number of sequenced genomes. The comparison of genomes is of great importance in the analysis of functionally important genome regions. It can also be used to understand the phylogenetic relationships of species and the mechanisms leading to rearrangement of karyotypes during evolution. Many species have been studied at the cytogenetic level by cross species chromosome painting. With the large amount of such information, it has become vital to computerize the data and make them accessible worldwide. Chromhome is a comprehensive web application that is designed to provide cytogenetic comparisons among species and to fulfil this need. Results The Chromhome application architecture is multi-tiered with an interactive client layer, business logic and database layers. Enterprise java platform with open source framework OpenLaszlo is used to implement the Rich Internet Chromhome Application. Cross species comparative mapping raw data are collected and the processed information is stored into MySQL Chromhome database. Chromhome Release 1.0 contains 109 homology maps from 51 species. The data cover species from 14 orders and 30 families. The homology map displays all the chromosomes of the compared species as one image, making comparisons among species easier. Inferred data also provides maps of homologous regions that could serve as a guideline for researchers involved in phylogenetic or evolution based studies. Conclusion Chromhome provides a useful resource for comparative genomics, holding graphical homology maps of a wide range of species. It brings together cytogenetic data of many genomes under one roof. Inferred painting can often determine the chromosomal homologous regions between two species, if each has been compared with a common third species. Inferred painting greatly reduces the need to map entire genomes and helps focus only on relevant

  15. Chromhome: a rich internet application for accessing comparative chromosome homology maps.

    PubMed

    Nagarajan, Sridevi; Rens, Willem; Stalker, James; Cox, Tony; Ferguson-Smith, Malcolm A

    2008-03-26

    Comparative genomics has become a significant research area in recent years, following the availability of a number of sequenced genomes. The comparison of genomes is of great importance in the analysis of functionally important genome regions. It can also be used to understand the phylogenetic relationships of species and the mechanisms leading to rearrangement of karyotypes during evolution. Many species have been studied at the cytogenetic level by cross species chromosome painting. With the large amount of such information, it has become vital to computerize the data and make them accessible worldwide. Chromhome http://www.chromhome.org is a comprehensive web application that is designed to provide cytogenetic comparisons among species and to fulfil this need. The Chromhome application architecture is multi-tiered with an interactive client layer, business logic and database layers. Enterprise java platform with open source framework OpenLaszlo is used to implement the Rich Internet Chromhome Application. Cross species comparative mapping raw data are collected and the processed information is stored into MySQL Chromhome database. Chromhome Release 1.0 contains 109 homology maps from 51 species. The data cover species from 14 orders and 30 families. The homology map displays all the chromosomes of the compared species as one image, making comparisons among species easier. Inferred data also provides maps of homologous regions that could serve as a guideline for researchers involved in phylogenetic or evolution based studies. Chromhome provides a useful resource for comparative genomics, holding graphical homology maps of a wide range of species. It brings together cytogenetic data of many genomes under one roof. Inferred painting can often determine the chromosomal homologous regions between two species, if each has been compared with a common third species. Inferred painting greatly reduces the need to map entire genomes and helps focus only on relevant

  16. A synthesis of mathematical and cognitive performances of students with mathematics learning disabilities.

    PubMed

    Shin, Mikyung; Bryant, Diane Pedrotty

    2015-01-01

    The purpose of this study was to synthesize the findings from 23 articles that compared the mathematical and cognitive performances of students with mathematics learning disabilities (LD) to (a) students with LD in mathematics and reading, (b) age- or grade-matched students with no LD, and (c) mathematical-ability-matched younger students with no LD. Overall results revealed that students with mathematics LD exhibited higher word problem-solving abilities and no significant group differences on working memory, long-term memory, and metacognition measures compared to students with LD in mathematics and reading. Findings also revealed students with mathematics LD demonstrated significantly lower performance compared to age- or grade-matched students with no LD on both mathematical and cognitive measures. Comparison between students with mathematics LD and younger students with no LD revealed mixed outcomes on mathematical measures and generally no significant group differences on cognitive measures. © Hammill Institute on Disabilities 2013.

  17. Participation in the Journey to Life Conversation Map Improves Control of Hypertension, Diabetes, and Hypercholesterolemia.

    PubMed

    Crawford, Paul; Wiltz, Scott

    2015-01-01

    The Diabetes Conversation Map program includes 4 "board game-like" education tools. We describe how the Journey to Life Conversation Map Education Class improves diabetes performance measures of hemoglobin A1c (HbA1c), low-density lipoprotein (LDL), and blood pressure (BP). Retrospective case-control study in a military family medicine clinic from January 2007 to January 2010. We included 202 patients who completed ≥1 conversation map class and a comparison group of 209 patients who did not attend. Attendees started with HbA1c 8.25 (95% confidence interval [CI], 7.86-8.64) and decreased to 6.96 (95% CI, 6.69-7.23). Patients in the comparison group started at 8.57 (95% CI, 8.18-8.95) and decreased to 8.27 (95% CI, 8.01-8.54) (P < .001). Attendees began with LDL of 111 mg/dL (95% CI, 103-119) and decreased to 94 mg/dL (95% CI, 81-106). Patients in the comparison group started at 89 mg/dL (95% CI, 81-98) and increased to 98 mg/dL (95% CI, 85-110) (P < .007). Systolic BP decreased 5.4 mmHg among attendees versus 0.8 mmHg among those in the comparison group (P = .014), whereas diastolic BP was unchanged (P = .110). The Journey to Life Healthy Interactions Conversation Map Education Class for diabetes improves diabetes performance measures. © Copyright 2015 by the American Board of Family Medicine.

  18. The Baseplate of Lactobacillus delbrueckii Bacteriophage Ld17 Harbors a Glycerophosphodiesterase.

    PubMed

    Cornelissen, Anneleen; Sadovskaya, Irina; Vinogradov, Evgeny; Blangy, Stéphanie; Spinelli, Silvia; Casey, Eoghan; Mahony, Jennifer; Noben, Jean-Paul; Dal Bello, Fabio; Cambillau, Christian; van Sinderen, Douwe

    2016-08-05

    Glycerophosphodiester phosphodiesterases (GDPDs; EC 3.1.4.46) typically hydrolyze glycerophosphodiesters to sn-glycerol 3-phosphate (Gro3P) and their corresponding alcohol during patho/physiological processes in bacteria and eukaryotes. GDPD(-like) domains were identified in the structural particle of bacterial viruses (bacteriophages) specifically infecting Gram-positive bacteria. The GDPD of phage 17 (Ld17; GDPDLd17), representative of the group b Lactobacillus delbrueckii subsp. bulgaricus (Ldb)-infecting bacteriophages, was shown to hydrolyze, besides the simple glycerophosphodiester, two complex surface-associated carbohydrates of the Ldb17 cell envelope: the Gro3P decoration of the major surface polysaccharide d-galactan and the oligo(glycerol phosphate) backbone of the partially glycosylated cell wall teichoic acid, a minor Ldb17 cell envelope component. Degradation of cell wall teichoic acid occurs according to an exolytic mechanism, and Gro3P substitution is presumed to be inhibitory for GDPDLd17 activity. The presence of the GDPDLd17 homotrimer in the viral baseplate structure involved in phage-host interaction together with the dependence of native GDPD activity, adsorption, and efficiency of plating of Ca(2+) ions supports a role for GDPDLd17 activity during phage adsorption and/or phage genome injection. In contrast to GDPDLd17, we could not identify any enzymatic activity for the GDPD-like domain in the neck passage structure of phage 340, a 936-type Lactococcus lactis subsp. lactis bacteriophage. © 2016 by The American Society for Biochemistry and Molecular Biology, Inc.

  19. The Baseplate of Lactobacillus delbrueckii Bacteriophage Ld17 Harbors a Glycerophosphodiesterase*

    PubMed Central

    Cornelissen, Anneleen; Sadovskaya, Irina; Vinogradov, Evgeny; Blangy, Stéphanie; Spinelli, Silvia; Casey, Eoghan; Mahony, Jennifer; Noben, Jean-Paul; Dal Bello, Fabio; Cambillau, Christian; van Sinderen, Douwe

    2016-01-01

    Glycerophosphodiester phosphodiesterases (GDPDs; EC 3.1.4.46) typically hydrolyze glycerophosphodiesters to sn-glycerol 3-phosphate (Gro3P) and their corresponding alcohol during patho/physiological processes in bacteria and eukaryotes. GDPD(-like) domains were identified in the structural particle of bacterial viruses (bacteriophages) specifically infecting Gram-positive bacteria. The GDPD of phage 17 (Ld17; GDPDLd17), representative of the group b Lactobacillus delbrueckii subsp. bulgaricus (Ldb)-infecting bacteriophages, was shown to hydrolyze, besides the simple glycerophosphodiester, two complex surface-associated carbohydrates of the Ldb17 cell envelope: the Gro3P decoration of the major surface polysaccharide d-galactan and the oligo(glycerol phosphate) backbone of the partially glycosylated cell wall teichoic acid, a minor Ldb17 cell envelope component. Degradation of cell wall teichoic acid occurs according to an exolytic mechanism, and Gro3P substitution is presumed to be inhibitory for GDPDLd17 activity. The presence of the GDPDLd17 homotrimer in the viral baseplate structure involved in phage-host interaction together with the dependence of native GDPD activity, adsorption, and efficiency of plating of Ca2+ ions supports a role for GDPDLd17 activity during phage adsorption and/or phage genome injection. In contrast to GDPDLd17, we could not identify any enzymatic activity for the GDPD-like domain in the neck passage structure of phage 340, a 936-type Lactococcus lactis subsp. lactis bacteriophage. PMID:27268053

  20. Planetary Geologic Mapping Handbook - 2009

    NASA Technical Reports Server (NTRS)

    Tanaka, K. L.; Skinner, J. A.; Hare, T. M.

    2009-01-01

    . Terrestrial geologic maps published by the USGS now are primarily digital products using geographic information system (GIS) software and file formats. GIS mapping tools permit easy spatial comparison, generation, importation, manipulation, and analysis of multiple raster image, gridded, and vector data sets. GIS software has also permitted the development of project-specific tools and the sharing of geospatial products among researchers. GIS approaches are now being used in planetary geologic mapping as well (e.g., Hare and others, 2009). Guidelines or handbooks on techniques in planetary geologic mapping have been developed periodically (e.g., Wilhelms, 1972, 1990; Tanaka and others, 1994). As records of the heritage of mapping methods and data, these remain extremely useful guides. However, many of the fundamental aspects of earlier mapping handbooks have evolved significantly, and a comprehensive review of currently accepted mapping methodologies is now warranted. As documented in this handbook, such a review incorporates additional guidelines developed in recent years for planetary geologic mapping by the NASA Planetary Geology and Geophysics (PGG) Program s Planetary Cartography and Geologic Mapping Working Group s (PCGMWG) Geologic Mapping Subcommittee (GEMS) on the selection and use of map bases as well as map preparation, review, publication, and distribution. In light of the current boom in planetary exploration and the ongoing rapid evolution of available data for planetary mapping, this handbook is especially timely.

  1. The First Global Geological Map of Mercury

    NASA Astrophysics Data System (ADS)

    Prockter, L. M.; Head, J. W., III; Byrne, P. K.; Denevi, B. W.; Kinczyk, M. J.; Fassett, C.; Whitten, J. L.; Thomas, R.; Ernst, C. M.

    2015-12-01

    Geological maps are tools with which to understand the distribution and age relationships of surface geological units and structural features on planetary surfaces. Regional and limited global mapping of Mercury has already yielded valuable science results, elucidating the history and distribution of several types of units and features, such as regional plains, tectonic structures, and pyroclastic deposits. To date, however, no global geological map of Mercury exists, and there is currently no commonly accepted set of standardized unit descriptions and nomenclature. With MESSENGER monochrome image data, we are undertaking the global geological mapping of Mercury at the 1:15M scale applying standard U.S. Geological Survey mapping guidelines. This map will enable the development of the first global stratigraphic column of Mercury, will facilitate comparisons among surface units distributed discontinuously across the planet, and will provide guidelines for mappers so that future mapping efforts will be consistent and broadly interpretable by the scientific community. To date we have incorporated three major datasets into the global geological map: smooth plains units, tectonic structures, and impact craters and basins >20 km in diameter. We have classified most of these craters by relative age on the basis of the state of preservation of morphological features and standard classification schemes first applied to Mercury by the Mariner 10 imaging team. Additional datasets to be incorporated include intercrater plains units and crater ejecta deposits. In some regions MESSENGER color data is used to supplement the monochrome data, to help elucidate different plains units. The final map will be published online, together with a peer-reviewed publication. Further, a digital version of the map, containing individual map layers, will be made publicly available for use within geographic information systems (GISs).

  2. A High-Density Consensus Map of Common Wheat Integrating Four Mapping Populations Scanned by the 90K SNP Array

    PubMed Central

    Wen, Weie; He, Zhonghu; Gao, Fengmei; Liu, Jindong; Jin, Hui; Zhai, Shengnan; Qu, Yanying; Xia, Xianchun

    2017-01-01

    A high-density consensus map is a powerful tool for gene mapping, cloning and molecular marker-assisted selection in wheat breeding. The objective of this study was to construct a high-density, single nucleotide polymorphism (SNP)-based consensus map of common wheat (Triticum aestivum L.) by integrating genetic maps from four recombinant inbred line populations. The populations were each genotyped using the wheat 90K Infinium iSelect SNP assay. A total of 29,692 SNP markers were mapped on 21 linkage groups corresponding to 21 hexaploid wheat chromosomes, covering 2,906.86 cM, with an overall marker density of 10.21 markers/cM. Compared with the previous maps based on the wheat 90K SNP chip detected 22,736 (76.6%) of the SNPs with consistent chromosomal locations, whereas 1,974 (6.7%) showed different chromosomal locations, and 4,982 (16.8%) were newly mapped. Alignment of the present consensus map and the wheat expressed sequence tags (ESTs) Chromosome Bin Map enabled assignment of 1,221 SNP markers to specific chromosome bins and 819 ESTs were integrated into the consensus map. The marker orders of the consensus map were validated based on physical positions on the wheat genome with Spearman rank correlation coefficients ranging from 0.69 (4D) to 0.97 (1A, 4B, 5B, and 6A), and were also confirmed by comparison with genetic position on the previously 40K SNP consensus map with Spearman rank correlation coefficients ranging from 0.84 (6D) to 0.99 (6A). Chromosomal rearrangements reported previously were confirmed in the present consensus map and new putative rearrangements were identified. In addition, an integrated consensus map was developed through the combination of five published maps with ours, containing 52,607 molecular markers. The consensus map described here provided a high-density SNP marker map and a reliable order of SNPs, representing a step forward in mapping and validation of chromosomal locations of SNPs on the wheat 90K array. Moreover, it can be

  3. Striking LD50 variation associated with fluctuations of CYP2E1-positive cells in hepatic lobule during chronic CCl4 exposure in mice.

    PubMed

    Irie, Hiroshi; Asano-Hoshino, Anshin; Sekino, Yoshihisa; Nogami, Makoto; Kitagawa, Tomoyuki; Kanda, Hiroaki

    2010-04-01

    Intraperitoneal injection of serially diluted carbon tetrachloride (CCl(4)) from 0.2 to 2.0 ml/kg produced an LD(50) value of 0.46 ml/kg in the normal mouse. Following repeated administration of 0.2 ml/kg CCl(4) twice a week for 1 and 3 months, the LD(50) values were over 2.0 and 0.72 ml/kg, respectively. A single administration of 0.2 ml/kg CCl(4) induced, within 24 h, apoptotic death of liver cells in the centrilobular zone 3 that were observed positive in cytochrome P450 2E1 (CYP2E1). However, after repeated exposure to 0.2 ml/kg twice a week for 1 month, cells in the centrilobular area were almost completely replaced with CYP2E1-negative cells. These cells were tolerant to CCl(4). After 3 months of exposure, a considerable number of CYP2E1-positive hepatocytes were observed throughout the periportal zone 1 and intermediate zone 2. Thus, fluctuations in CYP2E1-positive cells during chronic exposure to low doses of CCl(4) induced tolerance, which can be partially lost after prolonged CCl(4) exposure.

  4. Quantitative Skeletal Muscle MRI: Part 2, MR Spectroscopy and T2 Relaxation Time Mapping-Comparison Between Boys With Duchenne Muscular Dystrophy and Healthy Boys.

    PubMed

    Kim, Hee Kyung; Serai, Suraj; Lindquist, Diana; Merrow, Arnold C; Horn, Paul S; Kim, Dong Hoon; Wong, Brenda L

    2015-08-01

    The purpose of this study is to validate the use of MR spectroscopy (MRS) in measuring muscular fat and to compare it with T2 maps in differentiating boys with Duchenne muscular dystrophy (DMD) from healthy boys. Forty-two boys with DMD and 31 healthy boys were evaluated with MRI with (1)H-MRS and T2 maps. Grading of muscle fat and edema on conventional images, calculation of fat fractions ([fat / fat] + water) on MRS, and calculation of T2 fat values on T2 maps of the gluteus maximus and vastus lateralis muscles were performed. Group comparisons were made. The 95% reference interval (RI) of fat fraction for the control group was applied and compared with T2 map results. Minimal fat on T1-weighted images was seen in 90.3% (gluteus maximus) and 71.0% (vastus lateralis) of healthy boys, versus 33.3% (gluteus maximus) and 52.4% (vastus lateralis) of boys with DMD. Muscle edema was seen in none of the healthy boys versus 52.4% (gluteus maximus) and 57.1% (vastus lateralis) of the boys with DMD. Fat fractions were higher in the DMD group (52.7%, gluteus maximus; 27.3%, vastus lateralis) than in the control group (12.8%, gluteus maximus; 13.7%, vastus lateralis) (p < 0.001). The 95% RI for gluteus maximus (38.7%) resulted in 61.9% sensitivity and 100% specificity for differentiating boys with DMD from healthy boys, whereas the value for vastus lateralis (17.8%) resulted in 76.2% sensitivity and 100% specificity; both had lower accuracy than did T2 maps (100% sensitivity and specificity). There was a positive correlation between T2 fat values and fat fractions (p < 0.0001). In differentiation of the two groups, T2 maps were more accurate than MRS. Fat fractions can underestimate the actual amount of fat because of coexisting muscle edema in DMD.

  5. Mapping islands, reefs and shoals in the oceans surrounding Australia

    NASA Technical Reports Server (NTRS)

    Turner, L. G. (Principal Investigator)

    1975-01-01

    The author has identified the following significant results. Comparisons of the imagery with aerial photography of areas of reefs and island and with 1:250,000 maps of coastlines indicate that the MSS imagery depicts detail to an extent which is satisfactory for 1:250,000 mapping. As the imagery does not have some of the disadvantages of aerial photography, the former should be valuable for mapping reefs, islands, and shoals. The water discoloration problem is significant as the discolored water appears to occur near shallow depths, so that confusion could arise through the misinterpretation of discolored water, when it exists, as shallow water.

  6. Gas Source MBE Growth and Characterization of TlInGaAs/InP DH Structures for Temperature-independent Wavelength LD Application

    DTIC Science & Technology

    2002-01-01

    Structures for Temperature-independent Wavelength LD Application Hajime Asahi, Hwe-Jae Lee, Akiko Mizobata, Kenta Konishi, Osamu Maeda and Kumiko Asami The... Yamamoto , K. Iwata, S. Gonda and K. Oe, Jpn. J. Appl. Phys. 35, L876 (1996). 3. H. Asahi, Compound Semicond. 2, 34 (1996). 4. W.S. Pelouch and L.A. Schlie...Appl. Phys. Lett. 68, 1389 (1996). 5. M. Fushida, H. Asahi, K. Yamamoto , H. Koh, K. Asami, S. Gonda and K.Oe, Jpn. J. Appl. Phys. 36, L665 (1997). 6

  7. A sequence-based genetic map of Medicago truncatula and comparison of marker colinearity with M. sativa.

    PubMed Central

    Choi, Hong-Kyu; Kim, Dongjin; Uhm, Taesik; Limpens, Eric; Lim, Hyunju; Mun, Jeong-Hwan; Kalo, Peter; Penmetsa, R Varma; Seres, Andrea; Kulikova, Olga; Roe, Bruce A; Bisseling, Ton; Kiss, Gyorgy B; Cook, Douglas R

    2004-01-01

    A core genetic map of the legume Medicago truncatula has been established by analyzing the segregation of 288 sequence-characterized genetic markers in an F(2) population composed of 93 individuals. These molecular markers correspond to 141 ESTs, 80 BAC end sequence tags, and 67 resistance gene analogs, covering 513 cM. In the case of EST-based markers we used an intron-targeted marker strategy with primers designed to anneal in conserved exon regions and to amplify across intron regions. Polymorphisms were significantly more frequent in intron vs. exon regions, thus providing an efficient mechanism to map transcribed genes. Genetic and cytogenetic analysis produced eight well-resolved linkage groups, which have been previously correlated with eight chromosomes by means of FISH with mapped BAC clones. We anticipated that mapping of conserved coding regions would have utility for comparative mapping among legumes; thus 60 of the EST-based primer pairs were designed to amplify orthologous sequences across a range of legume species. As an initial test of this strategy, we used primers designed against M. truncatula exon sequences to rapidly map genes in M. sativa. The resulting comparative map, which includes 68 bridging markers, indicates that the two Medicago genomes are highly similar and establishes the basis for a Medicago composite map. PMID:15082563

  8. Comparison of tolerance to sunlight between spatially distant and genetically different strains of Lymantria dispar nucleopolyhedrovirus.

    PubMed

    Akhanaev, Yuriy B; Belousova, Irina A; Ershov, Nikita I; Nakai, Madoka; Martemyanov, Vyacheslav V; Glupov, Viktor V

    2017-01-01

    Baculoviruses are a family of insect-specific pathogenic viruses can persist outside for long periods through the formation of occlusion bodies. In spite of this ability, the UV of sunlight is an essential factor that limits the survival of baculoviruses outside the host. In the current study, we compared the UV tolerance of two strains of Lymantria dispar multiple nucleopolyhedrovirus (LdMNPV), which were isolated in spatially different regions (LdMNPV-27/0 in Western Siberia (Russia) and LdMNPV-45/0 in North America (USA)) and dramatically differ in their potency. We exposed the studied strains to sunlight in an open area for 0.25, 0.5, 1, and 2 hours and later perorally inoculated host larvae with the same doses of virus (5x105) and with doses leading to same effect (LD90). We observed that strain LdMNPV-45/0, which previously showed high virulence against L. dispar larvae, was more sensitive to UV irradiation (estimated as the relative rate of inactivation (r, h -1) and as the half-life of the virus (τ1/2, h)) compared to LdMNPV-27/0. Exposure to sunlight induced a significant delay of LdMNPV-45/0-induced pathogenesis already after 0.25 h of sunlight exposure, while for LdMNPV-27/0 this delay was occurred only after 2 h exposure in spite of used concentrations. We also compared the sequences of the main structural proteins of the studied strains as UV light contributes not only to genome damage in viruses but also to structural protein damage. The most prominent genetic difference between the structural proteins of the strains was related to the loss of the virus enhancin factor-1 (vef-1) gene in the LdMNPV-27/0 strain. Thus initially highly potent viral strain (such as LdMNPV-45/0) is not recommend to use in the regions (or forest stand density) with high UV load. The role of virus enhancin factor-1 in baculovirus tolerance to UV needs for following studies.

  9. A radiation hybrid map of river buffalo (Bubalus bubalis) chromosome 7 and comparative mapping to the cattle and human genomes

    PubMed Central

    Goldammer, T.; Weikard, R.; Miziara, M.N.; Brunner, R.M.; Agarwala, R.; Schäffer, A.A.; Womack, J.E.; Amaral, M.E.J.

    2013-01-01

    A preliminary radiation hybrid (RH) map containing 50 loci on chromosome 7 of the domestic river buffalo Bubalus bubalis (BBU; 2n = 50) was constructed based on a comparative mapping approach. The RH map of BBU7 includes thirty-seven gene markers and thirteen microsatellites. All loci have been previously assigned to Bos taurus (BTA) chromosome BTA6, which is known for its association with several economically important milk production traits in cattle. The map consists of two linkage groups spanning a total length of 627.9 cR5,000. Comparative analysis of the BBU7 RH5,000 map with BTA6 in cattle gave new evidence for strong similarity between the two chromosomes over their entire length and exposed minor differences in locus order. Comparison of the BBU7 RH5,000 map with the Homo sapiens (HSA) genome revealed similarity with a large chromosome segment of HSA4. Comparative analysis of loci in both species revealed more variability than previously known in gene order and several chromosome rearrangements including centromere relocation. The data obtained in our study define the evolutionary conserved segment on BBU7 and HSA4 to be between 3.5 megabases (Mb) and 115.8 Mb in the HSA4 (genome build 36) DNA sequence. PMID:18253035

  10. A tool for selecting SNPs for association studies based on observed linkage disequilibrium patterns.

    PubMed

    De La Vega, Francisco M; Isaac, Hadar I; Scafe, Charles R

    2006-01-01

    The design of genetic association studies using single-nucleotide polymorphisms (SNPs) requires the selection of subsets of the variants providing high statistical power at a reasonable cost. SNPs must be selected to maximize the probability that a causative mutation is in linkage disequilibrium (LD) with at least one marker genotyped in the study. The HapMap project performed a genome-wide survey of genetic variation with about a million SNPs typed in four populations, providing a rich resource to inform the design of association studies. A number of strategies have been proposed for the selection of SNPs based on observed LD, including construction of metric LD maps and the selection of haplotype tagging SNPs. Power calculations are important at the study design stage to ensure successful results. Integrating these methods and annotations can be challenging: the algorithms required to implement these methods are complex to deploy, and all the necessary data and annotations are deposited in disparate databases. Here, we present the SNPbrowser Software, a freely available tool to assist in the LD-based selection of markers for association studies. This stand-alone application provides fast query capabilities and swift visualization of SNPs, gene annotations, power, haplotype blocks, and LD map coordinates. Wizards implement several common SNP selection workflows including the selection of optimal subsets of SNPs (e.g. tagging SNPs). Selected SNPs are screened for their conversion potential to either TaqMan SNP Genotyping Assays or the SNPlex Genotyping System, two commercially available genotyping platforms, expediting the set-up of genetic studies with an increased probability of success.

  11. Construction of the physical map for three loci in chromosome band 13q14: comparison to the genetic map.

    PubMed Central

    Higgins, M J; Turmel, C; Noolandi, J; Neumann, P E; Lalande, M

    1990-01-01

    Pulsed-field gel electrophoresis (PFGE) and deletion mapping are being used to construct a physical map of the long arm of human chromosome 13. The present study reports a 2700-kilobase (kb) Not I long-range restriction map encompassing the 13q14-specific loci D13S10, D13S21, and D13S22, which are detected by the cloned DNA markers p7D2, pG24E2.4, and pG14E1.9, respectively. Analysis of a panel of seven cell lines that showed differential methylation at a Not I site between D13S10 and D13S21 proved physical linkage of the two loci to the same 875-kb Not I fragment. D13S22 mapped to a different Not I fragment, precluding the possibility that D13S22 is located between D13S10 and D13S21. PFGE analysis of Not I partial digests placed the 1850-kb Not I fragment containing D13S22 immediately adjacent to the 875-kb fragment containing the other two loci. The proximal rearrangement breakpoint in a cell line carrying a del13(q14.1q21.2) was detected by D13S21 but not by D13S10, demonstrating that D13S21 lies proximal to D13S10. Quantitative analysis of hybridization signals of the three DNA probes to DNA from the same cell line indicated that only D13S10 was deleted, establishing the order of these loci to be cen-D13S22-D13S21-D13S10-tel. Surprisingly, this order was estimated to be 35,000 times less likely than that favored by genetic linkage analysis. Images PMID:1970636

  12. The effect of missing data on linkage disequilibrium mapping and haplotype association analysis in the GAW14 simulated datasets

    PubMed Central

    McCaskie, Pamela A; Carter, Kim W; McCaskie, Simon R; Palmer, Lyle J

    2005-01-01

    We used our newly developed linkage disequilibrium (LD) plotting software, JLIN, to plot linkage disequilibrium between pairs of single-nucleotide polymorphisms (SNPs) for three chromosomes of the Genetic Analysis Workshop 14 Aipotu simulated population to assess the effect of missing data on LD calculations. Our haplotype analysis program, SIMHAP, was used to assess the effect of missing data on haplotype-phenotype association. Genotype data was removed at random, at levels of 1%, 5%, and 10%, and the LD calculations and haplotype association results for these levels of missingness were compared to those for the complete dataset. It was concluded that ignoring individuals with missing data substantially affects the number of regions of LD detected which, in turn, could affect tagging SNPs chosen to generate haplotypes. PMID:16451612

  13. Patellar cartilage lesions: comparison of magnetic resonance imaging and T2 relaxation-time mapping.

    PubMed

    Hannila, I; Nieminen, M T; Rauvala, E; Tervonen, O; Ojala, R

    2007-05-01

    To evaluate the detection and the size of focal patellar cartilage lesions in T2 mapping as compared to standard clinical magnetic resonance imaging (MRI) at 1.5T. Fifty-five consecutive clinical patients referred to knee MRI were imaged both with a standard knee MRI protocol (proton-density-weighted sagittal and axial series, T2-weighted sagittal and coronal series, and T1-weighted coronal series) and with an axial multislice multi-echo spin-echo measurement to determine the T2 relaxation time of the patellar cartilage. MR images and T2 maps of patellar cartilage were evaluated for focal lesions. The lesions were evaluated for lesion width (mm), lesion depth (1/3, 2/3, or 3/3 of cartilage thickness), and T2 value (20-40 ms, 40-60 ms, or 60-80 ms) based on visual evaluation. Altogether, 36 focal patellar cartilage lesions were detected from 20 human subjects (11 male, nine female, mean age 40+/-15 years). Twenty-eight lesions were detected both on MRI and T2 maps, while eight lesions were only visible on T2 maps. Cartilage lesions were significantly wider (P = 0.001) and thicker (P<0.001) on T2 maps as compared to standard knee MRI. Most lesions 27 had moderately (T2 40-60 ms) increased T2 values, while two lesions had slightly (T2 20-40 ms) and seven lesions remarkably (T2 60-80 ms) increased T2 relaxation times. T2 mapping of articular cartilage is feasible in the clinical setting and may reveal early cartilage lesions not visible with standard clinical MRI.

  14. Genome wide association mapping for grain shape traits in indica rice.

    PubMed

    Feng, Yue; Lu, Qing; Zhai, Rongrong; Zhang, Mengchen; Xu, Qun; Yang, Yaolong; Wang, Shan; Yuan, Xiaoping; Yu, Hanyong; Wang, Yiping; Wei, Xinghua

    2016-10-01

    Using genome-wide association mapping, 47 SNPs within 27 significant loci were identified for four grain shape traits, and 424 candidate genes were predicted from public database. Grain shape is a key determinant of grain yield and quality in rice (Oryza sativa L.). However, our knowledge of genes controlling rice grain shape remains limited. Genome-wide association mapping based on linkage disequilibrium (LD) has recently emerged as an effective approach for identifying genes or quantitative trait loci (QTL) underlying complex traits in plants. In this study, association mapping based on 5291 single nucleotide polymorphisms (SNPs) was conducted to identify significant loci associated with grain shape traits in a global collection of 469 diverse rice accessions. A total of 47 SNPs were located in 27 significant loci for four grain traits, and explained ~44.93-65.90 % of the phenotypic variation for each trait. In total, 424 candidate genes within a 200 kb extension region (±100 kb of each locus) of these loci were predicted. Of them, the cloned genes GS3 and qSW5 showed very strong effects on grain length and grain width in our study. Comparing with previously reported QTLs for grain shape traits, we found 11 novel loci, including 3, 3, 2 and 3 loci for grain length, grain width, grain length-width ratio and thousand grain weight, respectively. Validation of these new loci would be performed in the future studies. These results revealed that besides GS3 and qSW5, multiple novel loci and mechanisms were involved in determining rice grain shape. These findings provided valuable information for understanding of the genetic control of grain shape and molecular marker assistant selection (MAS) breeding in rice.

  15. Contrasting results from GWAS and QTL mapping on wing length in great reed warblers.

    PubMed

    Hansson, Bengt; Sigeman, Hanna; Stervander, Martin; Tarka, Maja; Ponnikas, Suvi; Strandh, Maria; Westerdahl, Helena; Hasselquist, Dennis

    2018-04-15

    A major goal in evolutionary biology is to understand the genetic basis of adaptive traits. In migratory birds, wing morphology is such a trait. Our previous work on the great reed warbler (Acrocephalus arundinaceus) shows that wing length is highly heritable and under sexually antagonistic selection. Moreover, a quantitative trait locus (QTL) mapping analysis detected a pronounced QTL for wing length on chromosome 2, suggesting that wing morphology is partly controlled by genes with large effects. Here, we re-evaluate the genetic basis of wing length in great reed warblers using a genomewide association study (GWAS) approach based on restriction site-associated DNA sequencing (RADseq) data. We use GWAS models that account for relatedness between individuals and include covariates (sex, age and tarsus length). The resulting association landscape was flat with no peaks on chromosome 2 or elsewhere, which is in line with expectations for polygenic traits. Analysis of the distribution of p-values did not reveal biases, and the inflation factor was low. Effect sizes were however not uniformly distributed on some chromosomes, and the Z chromosome had weaker associations than autosomes. The level of linkage disequilibrium (LD) in the population decayed to background levels within c. 1 kbp. There could be several reasons to why our QTL study and GWAS gave contrasting results including differences in how associations are modelled (cosegregation in pedigree vs. LD associations), how covariates are accounted for in the models, type of marker used (multi- vs. biallelic), difference in power or a combination of these. Our study highlights that the genetic architecture even of highly heritable traits is difficult to characterize in wild populations. © 2018 John Wiley & Sons Ltd.

  16. Zero entropy continuous interval maps and MMLS-MMA property

    NASA Astrophysics Data System (ADS)

    Jiang, Yunping

    2018-06-01

    We prove that the flow generated by any continuous interval map with zero topological entropy is minimally mean-attractable and minimally mean-L-stable. One of the consequences is that any oscillating sequence is linearly disjoint from all flows generated by all continuous interval maps with zero topological entropy. In particular, the Möbius function is linearly disjoint from all flows generated by all continuous interval maps with zero topological entropy (Sarnak’s conjecture for continuous interval maps). Another consequence is a non-trivial example of a flow having discrete spectrum. We also define a log-uniform oscillating sequence and show a result in ergodic theory for comparison. This material is based upon work supported by the National Science Foundation. It is also partially supported by a collaboration grant from the Simons Foundation (grant number 523341) and PSC-CUNY awards and a grant from NSFC (grant number 11571122).

  17. Uneven recombination and linkage disequilibrium across a reference SNP map for common bean (Phaseolus vulgaris L.)

    USDA-ARS?s Scientific Manuscript database

    Linkage disequilibrium (LD) and recombination (R) analyses are the basis for plant breeding. LD and R vary by breeding system, by generation of inbreeding or outcrossing and by region of the chromosome. Common bean (Phaseolus vulgaris L.) is a favored food legume with a small sequenced genome and n=...

  18. Planetary Geologic Mapping Handbook - 2010. Appendix

    NASA Technical Reports Server (NTRS)

    Tanaka, K. L.; Skinner, J. A., Jr.; Hare, T. M.

    2010-01-01

    the USGS now are primarily digital products using geographic information system (GIS) software and file formats. GIS mapping tools permit easy spatial comparison, generation, importation, manipulation, and analysis of multiple raster image, gridded, and vector data sets. GIS software has also permitted the development of projectspecific tools and the sharing of geospatial products among researchers. GIS approaches are now being used in planetary geologic mapping as well. Guidelines or handbooks on techniques in planetary geologic mapping have been developed periodically. As records of the heritage of mapping methods and data, these remain extremely useful guides. However, many of the fundamental aspects of earlier mapping handbooks have evolved significantly, and a comprehensive review of currently accepted mapping methodologies is now warranted. As documented in this handbook, such a review incorporates additional guidelines developed in recent years for planetary geologic mapping by the NASA Planetary Geology and Geophysics (PGG) Program's Planetary Cartography and Geologic Mapping Working Group's (PCGMWG) Geologic Mapping Subcommittee (GEMS) on the selection and use of map bases as well as map preparation, review, publication, and distribution. In light of the current boom in planetary exploration and the ongoing rapid evolution of available data for planetary mapping, this handbook is especially timely.

  19. A study of viscous interaction effects on hypersonic waveriders. Ph.D. Thesis, Dec. 1991

    NASA Technical Reports Server (NTRS)

    Chang, Jinhwa

    1992-01-01

    The effects of viscous interaction in the analysis and design of improved classes of viscous optimized hypersonic waveriders is examined. The Corda computer program is used to generate viscous optimized hypersonic waveriders from conical flow fields without viscous interaction. Each waverider is optimized for maximum L/D, and comparison studies are made between cases with and without viscous interaction. The results show that aerodynamic performance of the viscous interaction waveriders are reduced due mainly to a large increase in skin-friction drag associated with the viscous interaction phenomena that grows with increasing Mach number and altitude, but some of this performance loss can be recouped by including viscous interactions within the optimization procedure. When the waverider is optimized for viscous interaction, the shape can change dramatically. A significant result of the present work delineates on a velocity-altitude map the region where viscous interaction effects are significant for modern hypersonic waveriders by performing parametric runs to produce L/D, C sub L, and C sub D contour plots for Mach numbers from 6 to 30 at altitudes from 30 to 80 km.

  20. Seasonal comparison of two spatially distributed evapotranspiration mapping methods

    NASA Astrophysics Data System (ADS)

    Kisfaludi, Balázs; Csáki, Péter; Péterfalvi, József; Primusz, Péter

    2017-04-01

    More rainfall is disposed of through evapotranspiration (ET) on a global scale than through runoff and storage combined. In Hungary, about 90% of the precipitation evapotranspirates from the land and only 10% goes to surface runoff and groundwater recharge. Therefore, evapotranspiration is a very important element of the water balance, so it is a suitable parameter for the calibration of hydrological models. Monthly ET values of two MODIS-data based ET products were compared for the area of Hungary and for the vegetation period of the year 2008. The differences were assessed by land cover types and by elevation zones. One ET map was the MOD16, aiming at global coverage and provided by the MODIS Global Evaporation Project. The other method is called CREMAP, it was developed at the Budapest University of Technology and Economics for regional scale ET mapping. CREMAP was validated for the area of Hungary with good results, but ET maps were produced only for the period of 2000-2008. The aim of this research was to evaluate the performance of the MOD16 product compared to the CREMAP method. The average difference between the two products was the highest during summer, CREMAP estimating higher ET values by about 25 mm/month. In the spring and autumn, MOD16 ET values were higher by an average of 6 mm/month. The differences by land cover types showed a similar seasonal pattern to the average differences, and they correlated strongly with each other. Practically the same difference values could be calculated for arable lands and forests that together cover nearly 75% of the area of the country. Therefore, it can be said that the seasonal changes had the same effect on the two method's ET estimations in each land cover type areas. The analysis by elevation zones showed that on elevations lower than 200 m AMSL the trends of the difference values were similar to the average differences. The correlation between the values of these elevation zones was also strong. However weaker

  1. OxfordGrid: a web interface for pairwise comparative map views.

    PubMed

    Yang, Hongyu; Gingle, Alan R

    2005-12-01

    OxfordGrid is a web application and database schema for storing and interactively displaying genetic map data in a comparative, dot-plot, fashion. Its display is composed of a matrix of cells, each representing a pairwise comparison of mapped probe data for two linkage groups or chromosomes. These are arranged along the axes with one forming grid columns and the other grid rows with the degree and pattern of synteny/colinearity between the two linkage groups manifested in the cell's dot density and structure. A mouse click over the selected grid cell launches an image map-based display for the selected cell. Both individual and linear groups of mapped probes can be selected and displayed. Also, configurable links can be used to access other web resources for mapped probe information. OxfordGrid is implemented in C#/ASP.NET and the package, including MySQL schema creation scripts, is available at ftp://cggc.agtec.uga.edu/OxfordGrid/.

  2. Comparison of MODIS and VIIRS Snow Cover Products for the 2016 Hydrological Year

    NASA Astrophysics Data System (ADS)

    Klein, A. G.; Thapa, S.

    2017-12-01

    The VIIRS (Visible Infrared Imaging Radiometer Suite) instrument on board the Suomi-NPP satellite aims to provide long-term continuity of several environmental data series including snow cover initiated with MODIS. While it is speculated that MODIS and VIIRS snow cover products may differ because of their differing spatial resolutions and spectral coverage quantitative comparisons between their snow products are currently limited. Therefore this study intercompares MODIS and VIIRS snow products for the 2016 Hydrological Year over the Midwestern United States and southern Canada. Two hundred and forty-four swath snow products from MODIS/Aqua (MYD10L2) and the VIIRS EDR (VSCMO/binary) were intercompared using confusion matrices, comparison maps and false color imagery. Thresholding the MODIS NDSI Snow Cover product at a snow cover fraction of 30% generated binary snow maps most comparable to the NOAA VIIRS binary snow product. Overall agreement between MODIS and VIIRS was found to be approximately 98%. This exceeds the VIIRS accuracy requirements of 90% probability of correct typing. Agreement was highest during the winter but lower during late fall and spring. Comparability was lowest over forest. MODIS and VIIRS often mapped snow/no-snow transition zones as cloud. The assessment of total snow and cloud pixels and comparison snow maps of MODIS and VIIRS indicates that VIIRS is mapping more snow cover and less cloud cover compared to MODIS. This is evidenced by the average area of snow in MYD10L2 and VSCMO being 5.72% and 11.43%, no-snow 26.65% and 28.67%, and cloud 65.02% and 59.91%, respectively. Visual comparisons depict good qualitative agreement between snow cover area visible in MODIS and VIIRS false color imagery and mapped in their respective snow cover products. While VIIRS and MODIS have similar capacity to map snow cover, VIIRS has the potential to more accurately map snow cover area for the successive development of climate data records.

  3. Anxiety, Depression, and Coping Skills Among Mexican School Children: A Comparison of Students With and Without Learning Disabilities

    PubMed Central

    Gallegos, Julia; Langley, Audra; Villegas, Diana

    2012-01-01

    The purpose of this study was to compare severity and risk status for anxiety and depression with coping skills among 130 Mexican school children with learning disabilities (LD) and 130 school children without LD. This research is the first to explore the emotional difficulties of Mexican children with LD. Children completed the Spanish version of the Spence Children’s Anxiety Scale and Children’s Depression Inventory, and the Cuestionario de Afrontamiento (Coping Skills Questionnaire). Results indicated that a higher percentage of children with LD were at risk for anxiety (22.3% vs. 11.5%) and depression (32% vs. 18%). No statistically significant differences were found for coping skills. Results support the idea that there is an increased awareness of comorbid depression and anxiety among students with LD and a need to promote early identification and intervention in schools. Efforts should focus on better understanding the relationship between social-emotional difficulties and academic achievement and on developing effective interventions to support children with LD. PMID:24223470

  4. Creating a literature database of low-calorie sweeteners and health studies: evidence mapping.

    PubMed

    Wang, Ding Ding; Shams-White, Marissa; Bright, Oliver John M; Parrott, J Scott; Chung, Mei

    2016-01-05

    Evidence mapping is an emerging tool used to systematically identify, organize and summarize the quantity and focus of scientific evidence on a broad topic, but there are currently no methodological standards. Using the topic of low-calorie sweeteners (LCS) and selected health outcomes, we describe the process of creating an evidence-map database and demonstrate several example descriptive analyses using this database. The process of creating an evidence-map database is described in detail. The steps include: developing a comprehensive literature search strategy, establishing study eligibility criteria and a systematic study selection process, extracting data, developing outcome groups with input from expert stakeholders and tabulating data using descriptive analyses. The database was uploaded onto SRDR™ (Systematic Review Data Repository), an open public data repository. Our final LCS evidence-map database included 225 studies, of which 208 were interventional studies and 17 were cohort studies. An example bubble plot was produced to display the evidence-map data and visualize research gaps according to four parameters: comparison types, population baseline health status, outcome groups, and study sample size. This plot indicated a lack of studies assessing appetite and dietary intake related outcomes using LCS with a sugar intake comparison in people with diabetes. Evidence mapping is an important tool for the contextualization of in-depth systematic reviews within broader literature and identifies gaps in the evidence base, which can be used to inform future research. An open evidence-map database has the potential to promote knowledge translation from nutrition science to policy.

  5. Ensemble of ground subsidence hazard maps using fuzzy logic

    NASA Astrophysics Data System (ADS)

    Park, Inhye; Lee, Jiyeong; Saro, Lee

    2014-06-01

    Hazard maps of ground subsidence around abandoned underground coal mines (AUCMs) in Samcheok, Korea, were constructed using fuzzy ensemble techniques and a geographical information system (GIS). To evaluate the factors related to ground subsidence, a spatial database was constructed from topographic, geologic, mine tunnel, land use, groundwater, and ground subsidence maps. Spatial data, topography, geology, and various ground-engineering data for the subsidence area were collected and compiled in a database for mapping ground-subsidence hazard (GSH). The subsidence area was randomly split 70/30 for training and validation of the models. The relationships between the detected ground-subsidence area and the factors were identified and quantified by frequency ratio (FR), logistic regression (LR) and artificial neural network (ANN) models. The relationships were used as factor ratings in the overlay analysis to create ground-subsidence hazard indexes and maps. The three GSH maps were then used as new input factors and integrated using fuzzy-ensemble methods to make better hazard maps. All of the hazard maps were validated by comparison with known subsidence areas that were not used directly in the analysis. As the result, the ensemble model was found to be more effective in terms of prediction accuracy than the individual model.

  6. Mapping seabed sediments: Comparison of manual, geostatistical, object-based image analysis and machine learning approaches

    NASA Astrophysics Data System (ADS)

    Diesing, Markus; Green, Sophie L.; Stephens, David; Lark, R. Murray; Stewart, Heather A.; Dove, Dayton

    2014-08-01

    Marine spatial planning and conservation need underpinning with sufficiently detailed and accurate seabed substrate and habitat maps. Although multibeam echosounders enable us to map the seabed with high resolution and spatial accuracy, there is still a lack of fit-for-purpose seabed maps. This is due to the high costs involved in carrying out systematic seabed mapping programmes and the fact that the development of validated, repeatable, quantitative and objective methods of swath acoustic data interpretation is still in its infancy. We compared a wide spectrum of approaches including manual interpretation, geostatistics, object-based image analysis and machine-learning to gain further insights into the accuracy and comparability of acoustic data interpretation approaches based on multibeam echosounder data (bathymetry, backscatter and derivatives) and seabed samples with the aim to derive seabed substrate maps. Sample data were split into a training and validation data set to allow us to carry out an accuracy assessment. Overall thematic classification accuracy ranged from 67% to 76% and Cohen's kappa varied between 0.34 and 0.52. However, these differences were not statistically significant at the 5% level. Misclassifications were mainly associated with uncommon classes, which were rarely sampled. Map outputs were between 68% and 87% identical. To improve classification accuracy in seabed mapping, we suggest that more studies on the effects of factors affecting the classification performance as well as comparative studies testing the performance of different approaches need to be carried out with a view to developing guidelines for selecting an appropriate method for a given dataset. In the meantime, classification accuracy might be improved by combining different techniques to hybrid approaches and multi-method ensembles.

  7. Cgl2 plays an essential role in cuticular wax biosynthesis in cabbage (Brassica oleracea L. var. capitata).

    PubMed

    Liu, Dongming; Tang, Jun; Liu, Zezhou; Dong, Xin; Zhuang, Mu; Zhang, Yangyong; Lv, Honghao; Sun, Peitian; Liu, Yumei; Li, Zhansheng; Ye, Zhibiao; Fang, Zhiyuan; Yang, Limei

    2017-11-28

    The aerial parts of most land plants are covered with cuticular wax which is important for plants to avoid harmful factors. There is still no cloning study about wax synthesis gene of the alcohol-forming pathway in Brassica species. Scanning electron microscopy (SEM) showed that, compared with wild type (WT), wax crystal are severely reduced in both the adaxial and abaxial sides of cabbage (Brassica oleracea L. var. capitata L.) leaves from the LD10GL mutant. Genetic analysis results revealed that the glossy trait of LD10GL is controlled by a single recessive gene, and fine mapping results revealed that the target gene Cgl2 (Cabbage glossy 2) is located within a physical region of 170 kb on chromosome 1. Based on sequence analysis of the genes in the mapped region, the gene designated Bol013612 was speculated to be the candidate gene. Gene Bol013612 is homologous to Arabidopsis CER4, which encodes fatty acyl-coenzyme A reductase. Sequencing identified a single nucleotide substitution at an intron/exon boundary that results in an insertion of six nucleotides in the cDNA of Bol013612 in LD10GL. The phenotypic defect of LD10GL was confirmed by a functional complementation test with Arabidopsis mutant cer4. Our results indicated that wax crystals of cabbage mutant LD10GL are severely reduced and mutation of gene Bol013612 causes a glossy phenotype in the LD10GL mutant.

  8. LC and LD50 values of Bacillus thuringiensis Serovar japonensis strain buibui toxin to Oriental beetle and northern masked chafer larvae (Coleoptera: Scarabaeidae).

    PubMed

    Mashtoly, Tamer A; El-Zemaity, Mohamed El-Said; Hussien, Mohamed I; Alm, Steven R

    2009-10-01

    Bacillus thuringiensis serovar japonensis strain Buibui has the potential to be an important control agent for pest scarabs. Bioassays were designed to test B. t. japonensis against two of the major turf and ornamental scarab pests infesting turfgrasses and ornamentals and to serve as a basis for further tests against other scarab pests. LC and LD50 values of B. t. serovarjaponensis strain Buibui toxin and spores were determined by four different bioassays for the oriental beetle, Anomala orientalis (Waterhouse), and northern masked chafer, Cyclocephala borealis Arrow. Oriental beetle larvae were bioassayed in autoclaved and nonautoclaved soil from where they were collected (Kingston, RI [native]), in nonautoclaved soil from where the northern masked chafer larvae were collected (Groton, CT [foreign]), and per os. Northern masked chafer larvae were bioassayed in autoclaved and nonautoclaved soil from where they were collected (Groton, CT [native]), in nonautoclaved soil from where the oriental beetle larvae were collected (Kingston, RI [foreign]) and per os. LC50 values of 3.93 microg toxin/g autoclaved native soil, 1.80 microg toxin/g nonautoclaved native soil, and 0.42 microg toxin/g nonautoclaved foreign soil and an LD50 value of 0.41 microg per os were determined at 14 d forA. orientalis. LC50 values of 588.28 microg toxin/g autoclaved native soil, 155.10 microg toxin/g nonautoclaved native soil, 265.32 microg toxin/g nonautoclaved foreign soil, and LD50 of 5.21 microg per os were determined at 14 d (soils) and 10 d (per os) for C. borealis. There were significant differences in LC50 values for oriental beetles in autoclaved, nonautoclaved native soil and nonautoclaved foreign soil. There were significant differences in LCo values for northern masked chafers in autoclaved and nonautoclaved native soil. B. t. japonensis can be applied now for control of oriental beetles at rates that are economically competitive with synthetic chemicals. If we can determine the

  9. Comparison of the Effects of Episodic Mapping and Traditional Notetaking on the Recall of Historical Text.

    ERIC Educational Resources Information Center

    Denner, Peter R.

    This study examined the effects of episodic-mapping, traditional notetaking, and rereading on eighth-grade students' recall of historical text. Episodic-maps are a kind of notetaking procedure that requires students to represent ideas from a text in the form of a graphic diagram. As predicted, both episodic-mapping and traditional notetaking…

  10. Mapping of ligand-binding cavities in proteins.

    PubMed

    Andersson, C David; Chen, Brian Y; Linusson, Anna

    2010-05-01

    The complex interactions between proteins and small organic molecules (ligands) are intensively studied because they play key roles in biological processes and drug activities. Here, we present a novel approach to characterize and map the ligand-binding cavities of proteins without direct geometric comparison of structures, based on Principal Component Analysis of cavity properties (related mainly to size, polarity, and charge). This approach can provide valuable information on the similarities and dissimilarities, of binding cavities due to mutations, between-species differences and flexibility upon ligand-binding. The presented results show that information on ligand-binding cavity variations can complement information on protein similarity obtained from sequence comparisons. The predictive aspect of the method is exemplified by successful predictions of serine proteases that were not included in the model construction. The presented strategy to compare ligand-binding cavities of related and unrelated proteins has many potential applications within protein and medicinal chemistry, for example in the characterization and mapping of "orphan structures", selection of protein structures for docking studies in structure-based design, and identification of proteins for selectivity screens in drug design programs. 2009 Wiley-Liss, Inc.

  11. Mapping of Ligand-Binding Cavities in Proteins

    PubMed Central

    Andersson, C. David; Chen, Brian Y.; Linusson, Anna

    2010-01-01

    The complex interactions between proteins and small organic molecules (ligands) are intensively studied because they play key roles in biological processes and drug activities. Here, we present a novel approach to characterise and map the ligand-binding cavities of proteins without direct geometric comparison of structures, based on Principal Component Analysis of cavity properties (related mainly to size, polarity and charge). This approach can provide valuable information on the similarities, and dissimilarities, of binding cavities due to mutations, between-species differences and flexibility upon ligand-binding. The presented results show that information on ligand-binding cavity variations can complement information on protein similarity obtained from sequence comparisons. The predictive aspect of the method is exemplified by successful predictions of serine proteases that were not included in the model construction. The presented strategy to compare ligand-binding cavities of related and unrelated proteins has many potential applications within protein and medicinal chemistry, for example in the characterisation and mapping of “orphan structures”, selection of protein structures for docking studies in structure-based design and identification of proteins for selectivity screens in drug design programs. PMID:20034113

  12. Verification of the radiometric map of the Czech Republic.

    PubMed

    Matolín, Milan

    2017-01-01

    The radiometric map of the Czech Republic is based on uniform regional airborne radiometric total count measurements (1957-1959) which covered 100% of the country. The airborne radiometric instrument was calibrated to a 226 Ra point source. The calibration facility for field gamma-ray spectrometers, established in the Czech Republic in 1975, significantly contributed to the subsequent radiometric data standardization. In the 1990's, the original analogue airborne radiometric data were digitized and using the method of back-calibration (IAEA, 2003) converted to dose rate. The map of terrestrial gamma radiation expressed in dose rate (nGy/h) was published on the scale 1:500,000 in 1995. Terrestrial radiation in the Czech Republic, formed by magmatic, sedimentary and metamorphic rocks of Proterozoic to Quaternary age, ranges mostly from 6 to 245 nGy/h, with a mean of 65.6 ± 19.0 nGy/h. The elevated terrestrial radiation in the Czech Republic, in comparison to the global dose rate average of 54 nGy/h, reflects an enhanced content of natural radioactive elements in the rocks. The 1995 published radiometric map of the Czech Republic was successively studied and verified by additional ground gamma-ray spectrometric measurements and by comparison to radiometric maps of Germany, Poland and Slovakia in border zones. A ground dose rate intercomparison measurement under participation of foreign and domestic professional institutions revealed mutual dose rate deviations about 20 nGy/h and more due to differing technical parameters of applied radiometric instruments. Studies and verification of the radiometric map of the Czech Republic illustrate the magnitude of current deviations in dose rate data. This gained experience can assist in harmonization of dose rate data on the European scale. Copyright © 2016 Elsevier Ltd. All rights reserved.

  13. Map Classification: A Comparison of Schemes with Special Reference to the Continent of Africa. Occasional Papers, Number 154.

    ERIC Educational Resources Information Center

    Merrett, Christopher E.

    This guide to the theory and practice of map classification begins with a discussion of the filing of maps and the function of map classification based on area and theme as illustrated by four maps of Africa. The description of the various classification systems which follows is divided into book schemes with provision for maps (including Dewey…

  14. Linkage analysis by genotyping of sibling populations: a genetic map for the potato cyst nematode constructed using a "pseudo-F2" mapping strategy.

    PubMed

    Rouppe van der Voort, J N; van Eck, H J; van Zandvoort, P M; Overmars, H; Helder, J; Bakker, J

    1999-07-01

    A mapping strategy is described for the construction of a linkage map of a non-inbred species in which individual offspring genotypes are not amenable to marker analysis. After one extra generation of random mating, the segregating progeny was propagated, and bulked populations of offspring were analyzed. Although the resulting population structure is different from that of commonly used mapping populations, we show that the maximum likelihood formula for a normal F2 is applicable for the estimation of recombination. This "pseudo-F2" mapping strategy, in combination with the development of an AFLP assay for single cysts, facilitated the construction of a linkage map for the potato cyst nematode Globodera rostochiensis. Using 12 pre-selected AFLP primer combinations, a total of 66 segregating markers were identified, 62 of which were mapped to nine linkage groups. These 62 AFLP markers are randomly distributed and cover about 65% of the genome. An estimate of the physical size of the Globodera genome was obtained from comparisons of the number of AFLP fragments obtained with the values for Caenorhabditis elegans. The methodology presented here resulted in the first genomic map for a cyst nematode. The low value of the kilobase/centimorgan (kb/cM) ratio for the Globodera genome will facilitate map-based cloning of genes that mediate the interaction between the nematode and its host plant.

  15. Audio Tracking in Noisy Environments by Acoustic Map and Spectral Signature.

    PubMed

    Crocco, Marco; Martelli, Samuele; Trucco, Andrea; Zunino, Andrea; Murino, Vittorio

    2018-05-01

    A novel method is proposed for generic target tracking by audio measurements from a microphone array. To cope with noisy environments characterized by persistent and high energy interfering sources, a classification map (CM) based on spectral signatures is calculated by means of a machine learning algorithm. Next, the CM is combined with the acoustic map, describing the spatial distribution of sound energy, in order to obtain a cleaned joint map in which contributions from the disturbing sources are removed. A likelihood function is derived from this map and fed to a particle filter yielding the target location estimation on the acoustic image. The method is tested on two real environments, addressing both speaker and vehicle tracking. The comparison with a couple of trackers, relying on the acoustic map only, shows a sharp improvement in performance, paving the way to the application of audio tracking in real challenging environments.

  16. Maternal Stress in Nonverbal Learning Disorder: A Comparison with Reading Disorder

    ERIC Educational Resources Information Center

    Antshel, Kevin M.; Joseph, Guy-Ronald

    2006-01-01

    Maternal stress was assessed in mothers of children ages 8 to 11 years with learning disorders (LD). Age-, gender-, and IQ-matched children with reading disorders (RD; n = 31), children with nonverbal learning disorders (NVLD; n = 21), and typically developing control participants (n = 23) participated. Mothers of children with LD reported higher…

  17. Mapping visual cortex in monkeys and humans using surface-based atlases

    NASA Technical Reports Server (NTRS)

    Van Essen, D. C.; Lewis, J. W.; Drury, H. A.; Hadjikhani, N.; Tootell, R. B.; Bakircioglu, M.; Miller, M. I.

    2001-01-01

    We have used surface-based atlases of the cerebral cortex to analyze the functional organization of visual cortex in humans and macaque monkeys. The macaque atlas contains multiple partitioning schemes for visual cortex, including a probabilistic atlas of visual areas derived from a recent architectonic study, plus summary schemes that reflect a combination of physiological and anatomical evidence. The human atlas includes a probabilistic map of eight topographically organized visual areas recently mapped using functional MRI. To facilitate comparisons between species, we used surface-based warping to bring functional and geographic landmarks on the macaque map into register with corresponding landmarks on the human map. The results suggest that extrastriate visual cortex outside the known topographically organized areas is dramatically expanded in human compared to macaque cortex, particularly in the parietal lobe.

  18. PhosphOrtholog: a web-based tool for cross-species mapping of orthologous protein post-translational modifications.

    PubMed

    Chaudhuri, Rima; Sadrieh, Arash; Hoffman, Nolan J; Parker, Benjamin L; Humphrey, Sean J; Stöckli, Jacqueline; Hill, Adam P; James, David E; Yang, Jean Yee Hwa

    2015-08-19

    Most biological processes are influenced by protein post-translational modifications (PTMs). Identifying novel PTM sites in different organisms, including humans and model organisms, has expedited our understanding of key signal transduction mechanisms. However, with increasing availability of deep, quantitative datasets in diverse species, there is a growing need for tools to facilitate cross-species comparison of PTM data. This is particularly important because functionally important modification sites are more likely to be evolutionarily conserved; yet cross-species comparison of PTMs is difficult since they often lie in structurally disordered protein domains. Current tools that address this can only map known PTMs between species based on known orthologous phosphosites, and do not enable the cross-species mapping of newly identified modification sites. Here, we addressed this by developing a web-based software tool, PhosphOrtholog ( www.phosphortholog.com ) that accurately maps protein modification sites between different species. This facilitates the comparison of datasets derived from multiple species, and should be a valuable tool for the proteomics community. Here we describe PhosphOrtholog, a web-based application for mapping known and novel orthologous PTM sites from experimental data obtained from different species. PhosphOrtholog is the only generic and automated tool that enables cross-species comparison of large-scale PTM datasets without relying on existing PTM databases. This is achieved through pairwise sequence alignment of orthologous protein residues. To demonstrate its utility we apply it to two sets of human and rat muscle phosphoproteomes generated following insulin and exercise stimulation, respectively, and one publicly available mouse phosphoproteome following cellular stress revealing high mapping and coverage efficiency. Although coverage statistics are dataset dependent, PhosphOrtholog increased the number of cross-species mapped sites

  19. Polarization-color mapping strategies: catching up with color theory

    NASA Astrophysics Data System (ADS)

    Kruse, Andrew W.; Alenin, Andrey S.; Vaughn, Israel J.; Tyo, J. Scott

    2017-09-01

    Current visualization techniques for mapping polarization data to a color coordinates defined by the Hue, Saturation, Value (HSV) color representation are analyzed in the context of perceptual uniformity. Since HSV is not designed to be perceptually uniform, the extent of non-uniformity should be evaluated by using robust color difference formulae and by comparison to the state-of-the-art uniform color space CAM02-UCS. For mapping just angle of polarization with HSV hue, the results show clear non-uniformity and implications for how this can misrepresent the data. UCS can be used to create alternative mapping techniques that are perceptually uniform. Implementing variation in lightness may increase shape discrimination within the scene. Future work will be dedicated to measuring performance of both current and proposed methods using psychophysical analysis.

  20. Comparison of Stem Map Developed from Crown Geometry Allometry Linked Census Data to Airborne and Terrestrial Lidar at Harvard Forest, MA

    NASA Astrophysics Data System (ADS)

    Sullivan, F.; Palace, M. W.; Ducey, M. J.; David, O.; Cook, B. D.; Lepine, L. C.

    2014-12-01

    , high quality field-based stem maps with species and crown geometry information will allow for better comparisons and interpretations of individual tree spectra from the G-LiHT hyperspectral sensor as estimated by automated crown delineation of the G-LiHT lidar canopy height model.

  1. A comparison of infrared, radar, and geologic mapping of lunar craters

    USGS Publications Warehouse

    Thompson, T.W.; Masursky, H.; Shorthill, R.W.; Tyler, G.L.; Zisk, S.H.

    1974-01-01

    Between 1000 and 2000 infrared (eclipse) and radar anomalies have been mapped on the nearside hemisphere of the Moon. A study of 52 of these anomalies indicates that most are related to impact craters and that the nature of the infrared and radar responses is compatible with a previously developed geologic model of crater aging processes. The youngest craters are pronounced thermal and radar anomalies; that is, they have enhanced eclipse temperatures and are strong radar scatterers. With increasing crater age, the associated thermal and radar responses become progressively less noticeable until they assume values for the average lunar surface. The last type of anomaly to disappear is radar enhancement at longer wavelengths. A few craters, however, have infrared and radar behaviors not predicted by the aging model. One previously unknown feature - a field strewn with centimeter-sized rock fragments - has been identified by this technique of comparing maps at the infrared, radar, and visual wavelengths. ?? 1974 D. Reidel Publishing Company, Dordrecht-Holland.

  2. A High Density Consensus Map of Rye (Secale cereale L.) Based on DArT Markers

    PubMed Central

    Myśków, Beata; Stojałowski, Stefan; Heller-Uszyńska, Katarzyna; Góralska, Magdalena; Brągoszewski, Piotr; Uszyński, Grzegorz; Kilian, Andrzej; Rakoczy-Trojanowska, Monika

    2011-01-01

    Background Rye (Secale cereale L.) is an economically important crop, exhibiting unique features such as outstanding resistance to biotic and abiotic stresses and high nutrient use efficiency. This species presents a challenge to geneticists and breeders due to its large genome containing a high proportion of repetitive sequences, self incompatibility, severe inbreeding depression and tissue culture recalcitrance. The genomic resources currently available for rye are underdeveloped in comparison with other crops of similar economic importance. The aim of this study was to create a highly saturated, multilocus linkage map of rye via consensus mapping, based on Diversity Arrays Technology (DArT) markers. Methodology/Principal Findings Recombinant inbred lines (RILs) from 5 populations (564 in total) were genotyped using DArT markers and subjected to linkage analysis using Join Map 4.0 and Multipoint Consensus 2.2 software. A consensus map was constructed using a total of 9703 segregating markers. The average chromosome map length ranged from 199.9 cM (2R) to 251.4 cM (4R) and the average map density was 1.1 cM. The integrated map comprised 4048 loci with the number of markers per chromosome ranging from 454 for 7R to 805 for 4R. In comparison with previously published studies on rye, this represents an eight-fold increase in the number of loci placed on a consensus map and a more than two-fold increase in the number of genetically mapped DArT markers. Conclusions/Significance Through the careful choice of marker type, mapping populations and the use of software packages implementing powerful algorithms for map order optimization, we produced a valuable resource for rye and triticale genomics and breeding, which provides an excellent starting point for more in-depth studies on rye genome organization. PMID:22163026

  3. Mapping of uncertainty relations between continuous and discrete time

    NASA Astrophysics Data System (ADS)

    Chiuchiú, Davide; Pigolotti, Simone

    2018-03-01

    Lower bounds on fluctuations of thermodynamic currents depend on the nature of time, discrete or continuous. To understand the physical reason, we compare current fluctuations in discrete-time Markov chains and continuous-time master equations. We prove that current fluctuations in the master equations are always more likely, due to random timings of transitions. This comparison leads to a mapping of the moments of a current between discrete and continuous time. We exploit this mapping to obtain uncertainty bounds. Our results reduce the quests for uncertainty bounds in discrete and continuous time to a single problem.

  4. Mapping of uncertainty relations between continuous and discrete time.

    PubMed

    Chiuchiù, Davide; Pigolotti, Simone

    2018-03-01

    Lower bounds on fluctuations of thermodynamic currents depend on the nature of time, discrete or continuous. To understand the physical reason, we compare current fluctuations in discrete-time Markov chains and continuous-time master equations. We prove that current fluctuations in the master equations are always more likely, due to random timings of transitions. This comparison leads to a mapping of the moments of a current between discrete and continuous time. We exploit this mapping to obtain uncertainty bounds. Our results reduce the quests for uncertainty bounds in discrete and continuous time to a single problem.

  5. Interactive comparison and remediation of collections of macromolecular structures.

    PubMed

    Moriarty, Nigel W; Liebschner, Dorothee; Klei, Herbert E; Echols, Nathaniel; Afonine, Pavel V; Headd, Jeffrey J; Poon, Billy K; Adams, Paul D

    2018-01-01

    Often similar structures need to be compared to reveal local differences throughout the entire model or between related copies within the model. Therefore, a program to compare multiple structures and enable correction any differences not supported by the density map was written within the Phenix framework (Adams et al., Acta Cryst 2010; D66:213-221). This program, called Structure Comparison, can also be used for structures with multiple copies of the same protein chain in the asymmetric unit, that is, as a result of non-crystallographic symmetry (NCS). Structure Comparison was designed to interface with Coot(Emsley et al., Acta Cryst 2010; D66:486-501) and PyMOL(DeLano, PyMOL 0.99; 2002) to facilitate comparison of large numbers of related structures. Structure Comparison analyzes collections of protein structures using several metrics, such as the rotamer conformation of equivalent residues, displays the results in tabular form and allows superimposed protein chains and density maps to be quickly inspected and edited (via the tools in Coot) for consistency, completeness and correctness. © 2017 The Protein Society.

  6. Cost, accuracy, and consistency comparisons of land use maps made from high-altitutde aircraft photography and ERTS imagery

    USGS Publications Warehouse

    Fitzpatrick, Katherine A.

    1975-01-01

    Accuracy analyses for the land use maps of the Central Atlantic Regional Ecological Test Site were performed for a 1-percent sample of the area. Researchers compared Level II land use maps produced at three scales, 1:24,000, 1:100,000, and 1:250,000 from high-altitude photography, with each other and with point data obtained in the field. They employed the same procedures to determine the accuracy of the Level I land use maps produced at 1:250,000 from high-altitude photography and color composite ERTS imagery. The accuracy of the Level II maps was 84.9 percent at 1:24,000, 77.4 percent at 1:100,000, and 73.0 percent at 1:250,000. The accuracy of the Level I 1:250,000 maps produced from high-altitude aircraft photography was 76.5 percent and for those produced from ERTS imagery was 69.5 percent The cost of Level II land use mapping at 1:24,000 was found to be high ($11.93 per km2 ). The cost of mapping at 1:100,000 ($1.75) was about 2 times as expensive as mapping at 1:250,000 ($.88), and the accuracy increased by only 4.4 percent. Level I land use maps, when mapped from highaltitude photography, were about 4 times as expensive as the maps produced from ERTS imagery, although the accuracy is 7.0 percent greater. The Level I land use category that is least accurately mapped from ERTS imagery is urban and built-up land in the non-urban areas; in the urbanized areas, built-up land is more reliably mapped.

  7. Acute Oral Toxicity of Tetrodotoxin in Mice: Determination of Lethal Dose 50 (LD50) and No Observed Adverse Effect Level (NOAEL).

    PubMed

    Abal, Paula; Louzao, M Carmen; Antelo, Alvaro; Alvarez, Mercedes; Cagide, Eva; Vilariño, Natalia; Vieytes, Mercedes R; Botana, Luis M

    2017-02-24

    Tetrodotoxin (TTX) is starting to appear in molluscs from the European waters and is a hazard to seafood consumers. This toxin blocks sodium channels resulting in neuromuscular paralysis and even death. As a part of the risk assessment process leading to a safe seafood level for TTX, oral toxicity data are required. In this study, a 4-level Up and Down Procedure was designed in order to determine for the first time the oral lethal dose 50 (LD 50 ) and the No Observed Adverse Effect Level (NOAEL) in mice by using an accurate well-characterized TTX standard.

  8. Acute Oral Toxicity of Tetrodotoxin in Mice: Determination of Lethal Dose 50 (LD50) and No Observed Adverse Effect Level (NOAEL)

    PubMed Central

    Abal, Paula; Louzao, M. Carmen; Antelo, Alvaro; Alvarez, Mercedes; Cagide, Eva; Vilariño, Natalia; Vieytes, Mercedes R.; Botana, Luis M.

    2017-01-01

    Tetrodotoxin (TTX) is starting to appear in molluscs from the European waters and is a hazard to seafood consumers. This toxin blocks sodium channels resulting in neuromuscular paralysis and even death. As a part of the risk assessment process leading to a safe seafood level for TTX, oral toxicity data are required. In this study, a 4-level Up and Down Procedure was designed in order to determine for the first time the oral lethal dose 50 (LD50) and the No Observed Adverse Effect Level (NOAEL) in mice by using an accurate well-characterized TTX standard. PMID:28245573

  9. Alum adjuvanted rabies DNA vaccine confers 80% protection against lethal 50 LD50 rabies challenge virus standard strain.

    PubMed

    Garg, Rajni; Kaur, Manpreet; Saxena, Ankur; Prasad, Rajendra; Bhatnagar, Rakesh

    2017-05-01

    Rabies is a serious concern world-wide. Despite availability of rabies vaccines for long; their efficacy, safety, availability and cost effectiveness has been a tremendous issue. This calls for improvement of rabies vaccination strategies. DNA vaccination has immense potential in this regard. The DNA vaccine pgp.LAMP-1 conferred 60% protection to BALB/c mice against 20 LD 50 rabies challenge virus standard (CVS) strain challenge. Upon supplementation with Emulsigen-D, the vaccine formulation conferred complete protection against lethal challenge. To assess the feasibility of this vaccine formulation for human use, it was tested along with other FDA approved adjuvants, namely, Alum, Immuvac, Montanide ISA720 VG. Enhanced immune response correlated with high IgG antibody titer, Th2 biased response with a high level of rabies virus neutralizing antibodies (RVNAs) and IgG1/IgG2a ratio >1, observed upon alum supplementation of the rabies DNA vaccine. The total IgG antibody titer was 2IU/ml and total RVNA titer was observed to be 4IU/ml which is eight times higher than the minimum protective titer recommended by WHO. Furthermore, it conferred 80% protection against challenge with 50 LD 50 of the rabies CVS strain, conducted in compliance with the potency test for rabies recommended by the National Institutes of Health (NIH), USA. Previously, we have established pre-clinical safety of this vaccine as per the guidelines of Schedule Y, FDA as well as The European Agency for evaluation of Medicinal Products. The vaccine showed no observable toxicity at the site of injection as well as at systemic level in Wistar rats when administered with 10X recommended dose. Therefore, supplementation of rabies DNA vaccine, pgp.LAMP-1 with alum would lead to development of a non-toxic, efficacious, stable and affordable vaccine that can be used to combat high numbers of fatal rabies infections tormenting developing countries. Copyright © 2017 Elsevier Ltd. All rights reserved.

  10. Volcanism on Io: Insights from Global Geologic Mapping

    NASA Technical Reports Server (NTRS)

    Williams, D. A.; Keszthelyi, L. P.; Crown, D. A.; Geissler, P. E.; Schenk, P. M.; Yff, Jessica; Jaeger, W. L.

    2009-01-01

    We are preparing a new global geo-logic map of Jupiter s volcanic moon, Io. Here we report the type of data that are now available from our global mapping efforts, and how these data can be used to investigate questions regarding the volcano-tectonic evolution of Io. We are using the new map to investigate several specific questions about the geologic evolution of Io that previously could not be well addressed, including (for example) a comparison of the areas vs. the heights of Ionian mountains to assess their stability and evolution (Fig. 1). The area-height relationships of Io s visible mountains show the low abundance and low relief of volcanic mountains (tholi) relative to tectonic mountains, consistent with formation from low-viscosity lavas less likely to build steep edifices. Mottled mountains are generally less high than lineated mountains, consistent with a degradational formation.

  11. Design of an image encryption scheme based on a multiple chaotic map

    NASA Astrophysics Data System (ADS)

    Tong, Xiao-Jun

    2013-07-01

    In order to solve the problem that chaos is degenerated in limited computer precision and Cat map is the small key space, this paper presents a chaotic map based on topological conjugacy and the chaotic characteristics are proved by Devaney definition. In order to produce a large key space, a Cat map named block Cat map is also designed for permutation process based on multiple-dimensional chaotic maps. The image encryption algorithm is based on permutation-substitution, and each key is controlled by different chaotic maps. The entropy analysis, differential analysis, weak-keys analysis, statistical analysis, cipher random analysis, and cipher sensibility analysis depending on key and plaintext are introduced to test the security of the new image encryption scheme. Through the comparison to the proposed scheme with AES, DES and Logistic encryption methods, we come to the conclusion that the image encryption method solves the problem of low precision of one dimensional chaotic function and has higher speed and higher security.

  12. Fixed-point theorems for families of weakly non-expansive maps

    NASA Astrophysics Data System (ADS)

    Mai, Jie-Hua; Liu, Xin-He

    2007-10-01

    In this paper, we present some fixed-point theorems for families of weakly non-expansive maps under some relatively weaker and more general conditions. Our results generalize and improve several results due to Jungck [G. Jungck, Fixed points via a generalized local commutativity, Int. J. Math. Math. Sci. 25 (8) (2001) 497-507], Jachymski [J. Jachymski, A generalization of the theorem by Rhoades and Watson for contractive type mappings, Math. Japon. 38 (6) (1993) 1095-1102], Guo [C. Guo, An extension of fixed point theorem of Krasnoselski, Chinese J. Math. (P.O.C.) 21 (1) (1993) 13-20], Rhoades [B.E. Rhoades, A comparison of various definitions of contractive mappings, Trans. Amer. Math. Soc. 226 (1977) 257-290], and others.

  13. Comparison of validity of mapping between drug indications and ICD-10. Direct and indirect terminology based approaches.

    PubMed

    Choi, Y; Jung, C; Chae, Y; Kang, M; Kim, J; Joung, K; Lim, J; Cho, S; Sung, S; Lee, E; Kim, S

    2014-01-01

    Mapping of drug indications to ICD-10 was undertaken in Korea by a public and a private institution for their own purposes. A different mapping approach was used by each institution, which presented a good opportunity to compare the validity of the two approaches. This study was undertaken to compare the validity of a direct mapping approach and an indirect terminology based mapping approach of drug indications against the gold standard drawn from the results of the two mapping processes. Three hundred and seventy-five cardiovascular reference drugs were selected from all listed cardiovascular drugs for the study. In the direct approach, two experienced nurse coders mapped the free text indications directly to ICD-10. In the indirect terminology based approach, the indications were extracted and coded in the Korean Standard Terminology of Medicine. These terminology coded indications were then manually mapped to ICD-10. The results of the two approaches were compared to the gold standard. A kappa statistic was calculated to see the compatibility of both mapping approaches. Recall, precision and F1 score of each mapping approach were calculated and analyzed using a paired t-test. The mean number of indications for the study drugs was 5.42. The mean number of ICD-10 codes that matched in direct approach was 46.32 and that of indirect terminology based approach was 56.94. The agreement of the mapping results between the two approaches were poor (kappa = 0.19). The indirect terminology based approach showed higher recall (86.78%) than direct approach (p < 0.001). However, there was no difference in precision and F1 score between the two approaches. Considering no differences in the F1 scores, both approaches may be used in practice for mapping drug indications to ICD-10. However, in terms of consistency, time and manpower, better results are expected from the indirect terminology based approach.

  14. Investigation of watercourses by comparison of successive historical map surveys of Western Hungary

    NASA Astrophysics Data System (ADS)

    Kovács, Gábor

    2010-05-01

    The Second (Timár et al., 2006) and Third Military Survey (Biszak et al., 2007) of the Habsburg Empire, completed in the 19th century (1806-69 and 1869-87), can be very useful in different scientific investigations because of their accuracy and data content. The mapmakers used geodetic projections and survey technologies provided high accuracy. Therefore, scientists can use these maps and the represented objects in retrospective studies. The streams were drawn with very thin lines that also ascertain the high accuracy of their location. Previous study used the Second Military Survey to examine the neotectonic evaluation of the western part of the Pannonian Basin, bordered by Pinka, Rába and Répce Rivers (Kovács, 2010). The watercourses, especially alluvial ones, react very sensitively to tectonic forcing (Schumm & Khan, 1972; Ouchi, 1985). However, the present-day course of the creeks and rivers are mostly regulated, therefore they are unsuitable for such studies. The watercourses have reconstructed from maps surveyed prior to the main water control measures. The Second Military Survey was a perfect source for such studies. The investigated streams were free meandering ones. They could flood their banks, and only natural levees were present. After georeferencing the maps of the area, the streams were digitized, and their sinuosity values were computed. Where significant sinuosity changes have been detected along the streams, it can be considered as indicators of differential uplift or subsidence of the bedrock/alluvium. The goal of this study is to decide the character of several stream sections: were they free meandering ones or not? Some of the sections are antecedent ones, especially at the Vas Mountain at the present Austrian-Hungarian border. If the shapes of the watercourses on the different surveys are almost the same, the sinuosity refers to a prior, forced state of the stream. After digitizing the watercourses on the Third Military Survey sheets, some

  15. Operational shoreline mapping with high spatial resolution radar and geographic processing

    USGS Publications Warehouse

    Rangoonwala, Amina; Jones, Cathleen E; Chi, Zhaohui; Ramsey, Elijah W.

    2017-01-01

    A comprehensive mapping technology was developed utilizing standard image processing and available GIS procedures to automate shoreline identification and mapping from 2 m synthetic aperture radar (SAR) HH amplitude data. The development used four NASA Uninhabited Aerial Vehicle SAR (UAVSAR) data collections between summer 2009 and 2012 and a fall 2012 collection of wetlands dominantly fronted by vegetated shorelines along the Mississippi River Delta that are beset by severe storms, toxic releases, and relative sea-level rise. In comparison to shorelines interpreted from 0.3 m and 1 m orthophotography, the automated GIS 10 m alongshore sampling found SAR shoreline mapping accuracy to be ±2 m, well within the lower range of reported shoreline mapping accuracies. The high comparability was obtained even though water levels differed between the SAR and photography image pairs and included all shorelines regardless of complexity. The SAR mapping technology is highly repeatable and extendable to other SAR instruments with similar operational functionality.

  16. Global land cover mapping: a review and uncertainty analysis

    USGS Publications Warehouse

    Congalton, Russell G.; Gu, Jianyu; Yadav, Kamini; Thenkabail, Prasad S.; Ozdogan, Mutlu

    2014-01-01

    Given the advances in remotely sensed imagery and associated technologies, several global land cover maps have been produced in recent times including IGBP DISCover, UMD Land Cover, Global Land Cover 2000 and GlobCover 2009. However, the utility of these maps for specific applications has often been hampered due to considerable amounts of uncertainties and inconsistencies. A thorough review of these global land cover projects including evaluating the sources of error and uncertainty is prudent and enlightening. Therefore, this paper describes our work in which we compared, summarized and conducted an uncertainty analysis of the four global land cover mapping projects using an error budget approach. The results showed that the classification scheme and the validation methodology had the highest error contribution and implementation priority. A comparison of the classification schemes showed that there are many inconsistencies between the definitions of the map classes. This is especially true for the mixed type classes for which thresholds vary for the attributes/discriminators used in the classification process. Examination of these four global mapping projects provided quite a few important lessons for the future global mapping projects including the need for clear and uniform definitions of the classification scheme and an efficient, practical, and valid design of the accuracy assessment.

  17. Surface mapping of spike potential fields: experienced EEGers vs. computerized analysis.

    PubMed

    Koszer, S; Moshé, S L; Legatt, A D; Shinnar, S; Goldensohn, E S

    1996-03-01

    An EEG epileptiform spike focus recorded with scalp electrodes is clinically localized by visual estimation of the point of maximal voltage and the distribution of its surrounding voltages. We compared such estimated voltage maps, drawn by experienced electroencephalographers (EEGers), with a computerized spline interpolation technique employed in the commercially available software package FOCUS. Twenty-two spikes were recorded from 15 patients during long-term continuous EEG monitoring. Maps of voltage distribution from the 28 electrodes surrounding the points of maximum change in slope (the spike maximum) were constructed by the EEGer. The same points of maximum spike and voltage distributions at the 29 electrodes were mapped by computerized spline interpolation and a comparison between the two methods was made. The findings indicate that the computerized spline mapping techniques employed in FOCUS construct voltage maps with similar maxima and distributions as the maps created by experienced EEGers. The dynamics of spike activity, including correlations, are better visualized using the computerized technique than by manual interpretation alone. Its use as a technique for spike localization is accurate and adds information of potential clinical value.

  18. Comparison of UAV and WorldView-2 imagery for mapping leaf area index of mangrove forest

    NASA Astrophysics Data System (ADS)

    Tian, Jinyan; Wang, Le; Li, Xiaojuan; Gong, Huili; Shi, Chen; Zhong, Ruofei; Liu, Xiaomeng

    2017-09-01

    Unmanned Aerial Vehicle (UAV) remote sensing has opened the door to new sources of data to effectively characterize vegetation metrics at very high spatial resolution and at flexible revisit frequencies. Successful estimation of the leaf area index (LAI) in precision agriculture with a UAV image has been reported in several studies. However, in most forests, the challenges associated with the interference from a complex background and a variety of vegetation species have hindered research using UAV images. To the best of our knowledge, very few studies have mapped the forest LAI with a UAV image. In addition, the drawbacks and advantages of estimating the forest LAI with UAV and satellite images at high spatial resolution remain a knowledge gap in existing literature. Therefore, this paper aims to map LAI in a mangrove forest with a complex background and a variety of vegetation species using a UAV image and compare it with a WorldView-2 image (WV2). In this study, three representative NDVIs, average NDVI (AvNDVI), vegetated specific NDVI (VsNDVI), and scaled NDVI (ScNDVI), were acquired with UAV and WV2 to predict the plot level (10 × 10 m) LAI. The results showed that AvNDVI achieved the highest accuracy for WV2 (R2 = 0.778, RMSE = 0.424), whereas ScNDVI obtained the optimal accuracy for UAV (R2 = 0.817, RMSE = 0.423). In addition, an overall comparison results of the WV2 and UAV derived LAIs indicated that UAV obtained a better accuracy than WV2 in the plots that were covered with homogeneous mangrove species or in the low LAI plots, which was because UAV can effectively eliminate the influence from the background and the vegetation species owing to its high spatial resolution. However, WV2 obtained a slightly higher accuracy than UAV in the plots covered with a variety of mangrove species, which was because the UAV sensor provides a negative spectral response function(SRF) than WV2 in terms of the mangrove LAI estimation.

  19. Funnel plots and choropleth maps in cancer risk communication: a comparison of tools for disseminating population-based incidence data to stakeholders

    PubMed Central

    Cusimano, Rosanna; Zarcone, Maurizio; Mazzola, Sergio; Vitale, Francesco

    2017-01-01

    Background Population-based cancer registries provide epidemiological cancer information, but the indicators are often too complex to be interpreted by local authorities and communities, due to numeracy and literacy limitations. The aim of this paper is to compare the commonly used visual formats to funnel plots to enable local public health authorities and communities to access valid and understandable cancer incidence data obtained at the municipal level. Methods A funnel plot representation of standardised incidence ratio (SIR) was generated for the 82 municipalities of the Palermo Province with the 2003–2011 data from the Palermo Province Cancer Registry (Sicily, Italy). The properties of the funnel plot and choropleth map methodologies were compared within the context of disseminating epidemiological data to stakeholders. Results The SIRs of all the municipalities remained within the control limits, except for Palermo city area (SIR=1.12), which was sited outside the upper control limit line of 99.8%. The Palermo Province SIRs funnel plot representation was congruent with the choropleth map generated from the same data, but the former resulted more informative as shown by the comparisons of the weaknesses and strengths of the 2 visual formats. Conclusions Funnel plot should be used as a complementary valuable tool to communicate epidemiological data of cancer registries to communities and local authorities, visually conveying an efficient and simple way to interpret cancer incidence data. PMID:28363917

  20. Fine-mapping and initial characterization of QT interval loci in African Americans.

    PubMed

    Avery, Christy L; Sethupathy, Praveen; Buyske, Steven; He, Qianchuan; Lin, Dan-Yu; Arking, Dan E; Carty, Cara L; Duggan, David; Fesinmeyer, Megan D; Hindorff, Lucia A; Jeff, Janina M; Klein, Liviu; Patton, Kristen K; Peters, Ulrike; Shohet, Ralph V; Sotoodehnia, Nona; Young, Alicia M; Kooperberg, Charles; Haiman, Christopher A; Mohlke, Karen L; Whitsel, Eric A; North, Kari E

    2012-01-01

    The QT interval (QT) is heritable and its prolongation is a risk factor for ventricular tachyarrhythmias and sudden death. Most genetic studies of QT have examined European ancestral populations; however, the increased genetic diversity in African Americans provides opportunities to narrow association signals and identify population-specific variants. We therefore evaluated 6,670 SNPs spanning eleven previously identified QT loci in 8,644 African American participants from two Population Architecture using Genomics and Epidemiology (PAGE) studies: the Atherosclerosis Risk in Communities study and Women's Health Initiative Clinical Trial. Of the fifteen known independent QT variants at the eleven previously identified loci, six were significantly associated with QT in African American populations (P≤1.20×10(-4)): ATP1B1, PLN1, KCNQ1, NDRG4, and two NOS1AP independent signals. We also identified three population-specific signals significantly associated with QT in African Americans (P≤1.37×10(-5)): one at NOS1AP and two at ATP1B1. Linkage disequilibrium (LD) patterns in African Americans assisted in narrowing the region likely to contain the functional variants for several loci. For example, African American LD patterns showed that 0 SNPs were in LD with NOS1AP signal rs12143842, compared with European LD patterns that indicated 87 SNPs, which spanned 114.2 Kb, were in LD with rs12143842. Finally, bioinformatic-based characterization of the nine African American signals pointed to functional candidates located exclusively within non-coding regions, including predicted binding sites for transcription factors such as TBX5, which has been implicated in cardiac structure and conductance. In this detailed evaluation of QT loci, we identified several African Americans SNPs that better define the association with QT and successfully narrowed intervals surrounding established loci. These results demonstrate that the same loci influence variation in QT across multiple