Whole-genome linkage analysis in mapping alcoholism genes using single-nucleotide polymorphisms and microsatellites.
- Authors
- Wang, Shuang; Huang, Song; Liu, Nianjun; Chen, Liang; Oh, Cheongeun; Zhao, Hongyu
- Year
- 2005
- Journal
- BMC genetics
- PMID
- 16451637
- DOI
- 10.1186/1471-2156-6-S1-S28
- PMCID
- PMC1866758
There is currently a great interest in using single-nucleotide polymorphisms (SNPs) in genetic linkage and association studies because of the abundance of SNPs as well as the availability of high-throughput genotyping technologies. In this study, we compared the performance of whole-genome scans using SNPs with microsatellites on 143 pedigrees from the Collaborative Studies on Genetics of Alcoholism provided by Genetic Analysis Workshop 14. A total of 315 microsatellites and 10,081 SNPs from Affymetrix on 22 autosomal chromosomes were used in our analyses. We found that the results from the two scans had good overall concordance. One region on chromosome 2 and two regions on chromosome 7 showed significant linkage signals (i.e., NPL >or= 2) for alcoholism from both the SNP and microsatellite scans. The different results observed between the two scans may be explained by the difference observed in information content between the SNPs and the microsatellites.
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External
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|---|---|---|---|---|
| Genetic influences on adolescent behavior. | Dick DM et al. | — | 2016 | → |
| Genetic risk prediction and neurobiological understanding of alcoholism. | Levey DF et al. | — | 2014 | → |
| Mapping a new spontaneous preterm birth susceptibility gene, IGF1R, using linkage, haplotype sharing, and association analysis. | Haataja R et al. | — | 2011 | → |
| Specificity of genetic diversity in D1S80 revealed by SNP-VNTR haplotyping. | Limborska SA et al. | — | 2011 | → |
| Evidence for genes on chromosome 2 contributing to alcohol dependence with conduct disorder and suicide attempts. | Dick DM et al. | — | 2010 | → |
| Handling linkage disequilibrium in qualitative trait linkage analysis using dense SNPs: a two-step strategy. | Cho K et al. | — | 2009 | → |
| Phenomic, convergent functional genomic, and biomarker studies in a stress-reactive genetic animal model of bipolar disorder and co-morbid alcoholism. | Le-Niculescu H et al. | — | 2008 | → |
| Comparison of single-nucleotide polymorphisms and microsatellite markers for linkage analysis in the COGA and simulated data sets for Genetic Analysis Workshop 14: Presentation Groups 1, 2, and 3. | Wilcox MA et al. | — | 2005 | → |