Comparison of single-nucleotide polymorphisms and microsatellites in detecting quantitative trait loci for alcoholism: the Collaborative Study on the Genetics of Alcoholism.

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Authors: Kim, Helen; Hutter, Carolyn M; Monks, Stephanie A; Edwards, Karen L
Year: 2005
Journal: BMC genetics
PMID: 16451661
DOI: 10.1186/1471-2156-6-S1-S5
PMCID: PMC1866734

#	Section	Preview
0	Background	Alcoholism is a complex trait influenced by both genetic and nongenetic factors. Previous linkage…
1	Background	Traditionally, studies involving genome-wide linkage scans have used microsatellite markers spaced…
2	Background	One way of increasing power for linkage studies is to use more closely spaced markers, which is now…
3	Methods	Data for the Genetic Analysis Workshop (GAW14) was obtained from the Collaborative Study on the…
4	Methods	Heritability estimates and evidence for linkage were obtained using the variance components approach…
5	Methods	We examined the two-point and multipoint genome-wide LOD score distributions of each marker set…
6	Results	Heritability of lnmaxalc was estimated to be 15%. In general, genome-wide comparisons revealed…
7	Results	Q-Q plots of genome-wide two-point and multipoint LOD scores are presented in Figure 2. The straight…
8	Results	To further explore the distribution of maximum LOD scores for each marker map, we simulated…
9	Discussion	A previous sib-pair linkage analysis of lnmaxalc in COGA found significant evidence for linkage (LOD…
10	Discussion	Genome-wide two-point results from the three marker maps appeared to be comparable. However, the…
11	Discussion	Peak variance-components LOD scores were consistently higher for the SNP-based linkage analyses,…
12	Discussion	Direct comparisons between SNP-based and microsatellite-based results in this analysis were hindered…
13	Discussion	Moving to denser SNP maps, however, comes at the expense of increasing computational time. We…
14	Conclusion	In conclusion, variance-components linkage analysis using high-density SNP maps provided higher LOD…
15	Abbreviations	COGA: Collaborative Study on the Genetics of Alcoholism
16	Abbreviations	GAW: Genetic Analysis Workshop
17	Abbreviations	IBD: Identity by descent
18	Abbreviations	Q-Q: Quantile-quantile
19	Abbreviations	QTL: Quantitative trait locus

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Comparison of single-nucleotide polymorphisms and microsatellites in detecting quantitative trait loci for alcoholism: the Collaborative Study on the Genetics of Alcoholism.

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