AI Article Synopsis
- We compared seven SNP tagging programs across 10 regions with varying levels of linkage disequilibrium (LD) using a dataset from the Genetics of Alcoholism study.
- Despite differences in parameters and methods, the programs showed consistency in regions with moderate to strong LD.
- In one region with strong LD, as the number of selected SNPs increased, metrics like LOD score, mean information content, and type I error also rose.
Article Abstract
We compared seven different tagging single-nucleotide polymorphism (SNP) programs in 10 regions with varied amounts of linkage disequilibrium (LD) and physical distance. We used the Collaborative Studies on the Genetics of Alcoholism dataset, part of the Genetic Analysis Workshop 14. We show that in regions with moderate to strong LD these programs are relatively consistent, despite different parameters and methods. In addition, we compared the selected SNPs in a multipoint linkage analysis for one region with strong LD. As the number of selected SNPs increased, the LOD score, mean information content, and type I error also increased.
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|---|---|
| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1866708 | PMC |
| http://dx.doi.org/10.1186/1471-2156-6-S1-S73 | DOI Listing |
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