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

Rasika A. Mathias, Peisong Gao, Janet L. Goldstein, Alexander F. Wilson, Elizabeth W. Pugh, Paulette Furbert-Harris, Georgia M. Dunston, Floyd J. Malveaux, Alkis Togias, Kathleen C. Barnes, Terri H. Beaty, Shau Ku Huang

研究成果: 雜誌貢獻文章

44 引文 斯高帕斯(Scopus)

摘要

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.

原文英語
文章編號38
期刊BMC Genetics
7
DOIs
出版狀態已發佈 - 六月 14 2006
對外發佈Yes

    指紋

ASJC Scopus subject areas

  • Genetics
  • Genetics(clinical)

引用此

Mathias, R. A., Gao, P., Goldstein, J. L., Wilson, A. F., Pugh, E. W., Furbert-Harris, P., Dunston, G. M., Malveaux, F. J., Togias, A., Barnes, K. C., Beaty, T. H., & Huang, S. K. (2006). A graphical assessment of p-values from sliding window haplotype tests of association to identify asthma susceptibility loci on chromosome 11q. BMC Genetics, 7, [38]. https://doi.org/10.1186/1471-2156-7-38