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  • Title: Multipoint identity-by-descent computations for single-point polymorphism and microsatellite maps.
    Author: Hinrichs AL, Bertelsen S, Bierut LJ, Dunn G, Jin CH, Kauwe JS, Suarez BK.
    Journal: BMC Genet; 2005 Dec 30; 6 Suppl 1(Suppl 1):S34. PubMed ID: 16451644.
    Abstract:
    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.
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