TITLE

A graphical assessment of p-values from sliding window haplotype tests of association to identify asthma susceptibility loci on chromosome 11q

AUTHOR(S)
Mathias, Rasika A; Gao, Peisong; Goldstein, Janet L; Wilson, Alexander F; Pugh, Elizabeth W; Furbert-Harris, Paulette; Dunston, Georgia M; Malveaux, Floyd J; Togias, Alkis; Barnes, Kathleen C; Beaty, Terri H; Huang, Shau-Ku
PUB. DATE
January 2006
SOURCE
BMC Genetics;2006, Vol. 7, p38
SOURCE TYPE
Academic Journal
DOC. TYPE
Article
ABSTRACT
Background: Past work on asthmatic African American families revealed a strong linkage peak with modest evidence of association on chromosome 11q. Here, we perform tests of association for asthma and a panel of 609 SNPs in African American subjects using a sliding window approach. While efficient in screening a region of dense genotyping, this approach does create some problems: high numbers of tests, assimilating thousands of results, and questions about setting priorities on regions with association signals. Results: We present a newly developed tool, Graphical Assessment of Sliding P-values or GrASP, which uses color display to indicate the width of the sliding windows, significance of individual tests, density of SNP coverage and location of known genes that simplifies some of these issues, and use it to identify regions of interest in these data. Conclusion: We demonstrate that GrASP makes it easier to visualize, summarize and prioritize regions of interest from sliding window haplotype analysis, based jointly on the p-value from all the tests from these windows and the building of haplotypes of significance in the region. Using this approach, five regions yielded strong evidence for linkage and association with asthma, including the prior peak linkage region.
ACCESSION #
29324058

 

Related Articles

  • Is big beautiful? The continuing story of ADAM33 and asthma. Holgate, S. T.; Holloway, J. W. // Thorax;Apr2005, Vol. 60 Issue 4, p263 

    The article reports that the gene encoding A Disintegrin And Metalloprotease (ADAM) 33 was the first asthma susceptibility gene to be discovered by positional cloning. In 460 families enriched with asthma, linkage analysis using micro-satellite markers spaced 9 cM apart revealed a region on...

  • Evidence for asthma susceptibility genes on chromosome 11 in an African-American population. Huang, Shau-Ku; Mathias, Rasika A.; Ehrlich, Eva; Plunkett, Beverly; Liu, Xin; Cutting, Garry R.; Wang, Xin-Jing; Li, Xiao-Dong; Togias, Alkis; Barnes, Kathleen C.; Malveaux, Floyd; Rich, Stephen; Mellen, Beverly; Lange, Ethan; Beaty, Terri H. // Human Genetics;Jun2003, Vol. 113 Issue 1, p71 

    Initial genome-wide scan data provided suggestive evidence for linkage of the asthma phenotype in African-American (AA), but not Caucasian, families to chromosome 11q markers (peak at D11S1985; LOD=2). To refine this region, mapping analysis of 91 AA families (51 multiplex families and 40...

  • Phenotypic and genetic heterogeneity in a genome-wide linkage study of asthma families. Altmüller, Janine; Seidel, Corinna; Lee, Young-Ae; Loesgen, Sabine; Bulle, Dieter; Friedrichs, Frank; Jellouschek, Heidemarie; Kelber, Julika; Keller, Angela; Schuster, Antje; Silbermann, Michael; Wahlen, Wolfgang; Wolff, Peter; Schlenvoigt, Gerhard; Rüschendorf, Franz; Nürnberg, Peter; Wjst, Matthias // BMC Pulmonary Medicine;2005, Vol. 5, p1 

    Background: Asthma is a complex genetic disease with more than 20 genome-wide scans conducted so far. Regions on almost every chromosome have been linked to asthma and several genes have been associated. However, most of these associations are weak and are still awaiting replication. Methods: In...

  • Large scale genotyping study for asthma in the Japanese population. Imada, Yoshiko; Fujimoto, Masaya; Hirata, Kenji; Hirota, Tomomitsu; Suzuki, Yoichi; Saito, Hirohisa; Matsumoto, Kenji; Akazawa, Akira; Katsunuma, Toshio; Yoshihara, Shigemi; Ebisawa, Motohiro; Shibasaki, Masanao; Arinami, Tadao; Tamari, Mayumi; Noguchi, Emiko // BMC Research Notes;2009, Vol. 2, p1 

    Background: Asthma is a complex phenotype that is influenced by both genetic and environmental factors. Genome-wide linkage and association studies have been performed to identify susceptibility genes for asthma. These studies identified new genes and pathways implicated in this disease, many of...

  • Research group forms to examine severe asthma.  // Infectious Diseases in Children;Mar2008, Vol. 21 Issue 3, p42 

    The article discusses research being done on the difference between severe and nonsevere forms of asthma. It references a study by Ronald Sorkness et al, published in the 2008 issue of the "Journal of Applied Physiology." Data were collected on the role that genes and viruses may play in the...

  • A methodology to establish a database to study gene environment interactions for childhood asthma. Turner, Stephen W.; Ayres, Jon G.; Macfarlane, Tatiana V.; Mehta, Anil; Mehta, Gita; Palmer, Colin N.; Cunningham, Steve; Adams, Tim; Aniruddhan, Krishnan; Bell, Claire; Corrigan, Donna; Cunningham, Jason; Duncan, Andrew; Hunt, Gerard; Leece, Richard; MacFadyen, Una; McCormick, Jonathan; McLeish, Sally; Mitra, Andrew; Miller, Deborah // BMC Medical Research Methodology;2010, Vol. 10, p107 

    Background: Gene-environment interactions are likely to explain some of the heterogeneity in childhood asthma. Here, we describe the methodology and experiences in establishing a database for childhood asthma designed to study gene-environment interactions (PAGES - Paediatric Asthma Gene...

  • Asthma. Roman, Marlene // MEDSURG Nursing;Jun2007, Vol. 16 Issue 3, p209 

    A quiz concerning the management of asthma patient is presented.

  • Airwaves.  // Thorax;Sep2008, Vol. 63 Issue 9, p751 

    The article discusses various reports published within the issue including one on how national and international guidelines stress the importance of self-management education for patients with asthma and another on the Global Initiative for Chronic Obstructive Lung Disease classification.

  • Does Asthma Lower Cancer Risk?  // AARC Times;Aug2010, Vol. 34 Issue 8, p89 

    The article reports on the population-based study conducted in Montreal, Quebec indicating that men with asthma were less likely to develop stomach cancer and that men with eczema had a lower risk for lung cancer.

Share

Read the Article

Courtesy of THE LIBRARY OF VIRGINIA

Sorry, but this item is not currently available from your library.

Try another library?
Sign out of this library

Other Topics