Multipoint identity-by-descent computations for single-point polymorphism and microsatellite maps.
- Authors
- Hinrichs, Anthony L; Bertelsen, Sarah; Bierut, Laura J; Dunn, Gerald; Jin, Carol H; Kauwe, John S; Suarez, Brian K
- Year
- 2005
- Journal
- BMC genetics
- PMID
- 16451644
- DOI
- 10.1186/1471-2156-6-S1-S34
- PMCID
- PMC1866751
We used the LOKI software to generate multipoint identity-by-descent matrices for a microsatellite map (with 31 markers) and two single-nucleotide polymorphism (SNP) maps to examine information content across chromosome 7 in the Collaborative Study on the Genetics of Alcoholism dataset. Despite the lower information provided by a single SNP, SNP maps overall had higher and more uniform information content across the chromosome. The Affymetrix map (578 SNPs) and the Illumina map (271 SNPs) provided almost identical information. However, increased information has a computational cost: SNP maps require 100 times as many iterations as microsatellites to produce stable estimates.
No figures extracted from this document.
| # | Section | Preview |
|---|---|---|
| 20 | Abbreviations | MLE: Maximum likelihood estimators |
| 21 | Abbreviations | SNP: Single-nucleotide polymorphism |
| 22 | Authors' contributions | ALH formatted the data files, analyzed the data, and drafted the manuscript. JSKK provided analyses… |
No entities extracted from this document yet.
No uploaded files.
In this knowledge base
External
| Title | Authors | Journal | Year | Link |
|---|---|---|---|---|
| Evidence for genes on chromosome 2 contributing to alcohol dependence with conduct disorder and suicide attempts. | Dick DM et al. | — | 2010 | → |
| Whole population, genome-wide mapping of hidden relatedness. | Gusev A et al. | — | 2009 | → |
| Linkage scan for quantitative traits identifies new regions of interest for substance dependence in the Collaborative Study on the Genetics of Alcoholism (COGA) sample. | Agrawal A et al. | — | 2008 | → |
| Evidence in favor of linkage to human chromosomal regions 18q, 5q and 13q for bicuspid aortic valve and associated cardiovascular malformations. | Martin LJ et al. | — | 2007 | → |
| The advantages of dense marker sets for linkage analysis with very large families. | Thomson R et al. | — | 2007 | → |
| Linkage mapping methods applied to the COGA data set: presentation Group 4 of Genetic Analysis Workshop 14. | Daw EW et al. | — | 2005 | → |
| Microsatellites versus single-nucleotide polymorphisms in linkage analysis for quantitative and qualitative measures. | Dunn G et al. | — | 2005 | → |