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Haplotype sharing correlation of alcohol dependence on chromosomes 1–6 in 93 nuclear families

Haplotype data contain signatures of ancestral alleles and increased information for mapping genes associated with complex traits. The motivation of this paper is to test the feasibility of a recently developed haplotype reconstruction algorithm and to perform haplotype-sharing correlation (HSC) ana...

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Autor principal: Qian, Dajun
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2005
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1866702/
https://www.ncbi.nlm.nih.gov/pubmed/16451693
http://dx.doi.org/10.1186/1471-2156-6-S1-S79
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author Qian, Dajun
author_facet Qian, Dajun
author_sort Qian, Dajun
collection PubMed
description Haplotype data contain signatures of ancestral alleles and increased information for mapping genes associated with complex traits. The motivation of this paper is to test the feasibility of a recently developed haplotype reconstruction algorithm and to perform haplotype-sharing correlation (HSC) analysis in nuclear families using data provided by the Genetic Analysis Workshop 14 and the Collaborative Study of the Genetics of Alcoholism. As an exemplary analysis, haplotype data on chromosomes 1–6 were reconstructed from genotype data in 93 nuclear families by minimizing both the recombinants in within-family haplotypes and the tree distance in between-family haplotypes. HSC analysis was performed using the best set of reconstructed haplotypes, and chromosome-wide significance was evaluated using a permutation procedure. Three markers were found to have significant haplotype associations with DSM-IV alcohol dependence that exceeded the 0.05 level of chromosome-wide significance: marker rs895941 at 36.7 cM on chromosome 3 (p = 0.03), marker rs1631833 at 109.1 cM on chromosome 4 (p = 0.008), and marker rs953887 at 74.2 cM on chromosome 6 (p = 0.02). These results indicated the usefulness of HSC analysis and provided further evidence on chromosome regions associated with alcohol dependence.
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spelling pubmed-18667022007-05-11 Haplotype sharing correlation of alcohol dependence on chromosomes 1–6 in 93 nuclear families Qian, Dajun BMC Genet Proceedings Haplotype data contain signatures of ancestral alleles and increased information for mapping genes associated with complex traits. The motivation of this paper is to test the feasibility of a recently developed haplotype reconstruction algorithm and to perform haplotype-sharing correlation (HSC) analysis in nuclear families using data provided by the Genetic Analysis Workshop 14 and the Collaborative Study of the Genetics of Alcoholism. As an exemplary analysis, haplotype data on chromosomes 1–6 were reconstructed from genotype data in 93 nuclear families by minimizing both the recombinants in within-family haplotypes and the tree distance in between-family haplotypes. HSC analysis was performed using the best set of reconstructed haplotypes, and chromosome-wide significance was evaluated using a permutation procedure. Three markers were found to have significant haplotype associations with DSM-IV alcohol dependence that exceeded the 0.05 level of chromosome-wide significance: marker rs895941 at 36.7 cM on chromosome 3 (p = 0.03), marker rs1631833 at 109.1 cM on chromosome 4 (p = 0.008), and marker rs953887 at 74.2 cM on chromosome 6 (p = 0.02). These results indicated the usefulness of HSC analysis and provided further evidence on chromosome regions associated with alcohol dependence. BioMed Central 2005-12-30 /pmc/articles/PMC1866702/ /pubmed/16451693 http://dx.doi.org/10.1186/1471-2156-6-S1-S79 Text en Copyright © 2005 Qian; licensee BioMed Central Ltd http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License ( (http://creativecommons.org/licenses/by/2.0) ), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Proceedings
Qian, Dajun
Haplotype sharing correlation of alcohol dependence on chromosomes 1–6 in 93 nuclear families
title Haplotype sharing correlation of alcohol dependence on chromosomes 1–6 in 93 nuclear families
title_full Haplotype sharing correlation of alcohol dependence on chromosomes 1–6 in 93 nuclear families
title_fullStr Haplotype sharing correlation of alcohol dependence on chromosomes 1–6 in 93 nuclear families
title_full_unstemmed Haplotype sharing correlation of alcohol dependence on chromosomes 1–6 in 93 nuclear families
title_short Haplotype sharing correlation of alcohol dependence on chromosomes 1–6 in 93 nuclear families
title_sort haplotype sharing correlation of alcohol dependence on chromosomes 1–6 in 93 nuclear families
topic Proceedings
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1866702/
https://www.ncbi.nlm.nih.gov/pubmed/16451693
http://dx.doi.org/10.1186/1471-2156-6-S1-S79
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