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Comparison of family-based association tests in chromosome regions selected by linkage-based confidence intervals.
- Source :
-
BMC genetics [BMC Genet] 2005 Dec 30; Vol. 6 Suppl 1, pp. S62. Date of Electronic Publication: 2005 Dec 30. - Publication Year :
- 2005
-
Abstract
- We use the Genetic Analysis Workshop 14 simulated data to explore the effectiveness of a two-stage strategy for mapping complex disease loci consisting of an initial genome scan with confidence interval construction for gene location, followed by fine mapping with family-based tests of association on a dense set of single-nucleotide polymorphisms. We considered four types of intervals: the 1-LOD interval, a basic percentile bootstrap confidence interval based on the position of the maximum Zlr score, and asymptotic and bootstrap confidence intervals based on a generalized estimating equations method. For fine mapping we considered two family-based tests of association: a test based on a likelihood ratio statistic and a transmission-disequilibrium-type test implemented in the software FBAT. In two of the simulation replicates, we found that the bootstrap confidence intervals based on the peak Zlr and the 1-LOD support interval always contained the true disease loci and that the likelihood ratio test provided further strong confirmatory evidence of the presence of disease loci in these regions.
Details
- Language :
- English
- ISSN :
- 1471-2156
- Volume :
- 6 Suppl 1
- Database :
- MEDLINE
- Journal :
- BMC genetics
- Publication Type :
- Academic Journal
- Accession number :
- 16451675
- Full Text :
- https://doi.org/10.1186/1471-2156-6-S1-S62