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Nonparametric linkage analysis of alcohol dependence with chromosome 1 and 7 markers
Author(s) -
D'Alfonso Sandra
Publication year - 1999
Publication title -
genetic epidemiology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.301
H-Index - 98
eISSN - 1098-2272
pISSN - 0741-0395
DOI - 10.1002/gepi.1370170722
Subject(s) - genetics , locus (genetics) , linkage disequilibrium , biology , genetic linkage , chromosome , linkage (software) , genetic analysis , chromosome 9 , allele , gene , haplotype
Abstract We analyzed 105 multiplex families from the Collaborative Study on the Genetics of Alcoholism (COGA) for markers on chromosome 1 (n = 20) and chromosome 7 (n = 19) with the GENEHUNTER program. On chromosome 1, three markers (D1S532, D1S1588, and D1S534) in single‐point analysis and five markers in multipoint analysis (D1S532, D1S1588, D1S1675, D1S534, and D1S1595) showed a nonparametric linkage (NPL) p‐value < 0.05. They mapped in two different but nearby regions, spanning, respectively, 18 cM (D1S532, D1S1588) and 19 cM (D1S1675, D1S534, and D1S1595) and separated by a 20‐cM interval. The highest NPL score was obtained for D1S534 (NPL = 2.26, p = 0.013 for single‐point analysis and NPL = 2.81, p = 0.0029, for multipoint analysis). The maximum NPL score on chromosome 7 was observed for D7S1793 (NPL = 1.72, p = 0.044 for single‐point analysis and NPL = 2.02, p = 0.023 for multipoint analysis). The markers which showed NPL p‐values < 0.05 on chromosome 1 (D1S532, D1S1588, D1S1675, D1S534, and D1S1595) and on chromosome 7 (D7S1793) were analyzed for association using the transmission/disequilibrium test. None of the alleles at these six loci showed a distorted transmission pattern. These data indicate that the two loci “suggestively” linked to alcohol dependence are either in linkage equilibrium with a susceptibility locus or are too far from the susceptibility locus to show disequilibrium, if present.