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This article is part of the supplement: Genetic Analysis Workshop 14: Microsatellite and single-nucleotide polymorphism

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Whole-genome association studies of alcoholism with loci linked to schizophrenia susceptibility

Junghyun Namkung1, Youngchul Kim2 and Taesung Park12*

Author Affiliations

1 Bioinformatics Program, Seoul National University, Seoul 151-747, South Korea

2 Department of Statistics, Seoul National University, Seoul 151-747, South Korea

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BMC Genetics 2005, 6(Suppl 1):S9  doi:10.1186/1471-2156-6-S1-S9

Published: 30 December 2005



Alcoholism is a complex disease. There have been many reports on significant comorbidity between alcoholism and schizophrenia. For the genetic study of complex diseases, association analysis has been recommended because of its higher power than that of the linkage analysis for detecting genes with modest effects on disease.


To identify alcoholism susceptibility loci, we performed genome-wide single-nucleotide polymorphisms (SNP) association tests, which yielded 489 significant SNPs at the 1% significance level. The association tests showed that tsc0593964 (P-value 0.000013) on chromosome 7 was most significantly associated with alcoholism. From 489 SNPs, 74 genes were identified. Among these genes, GABRA1 is a member of the same gene family with GABRA2 that was recently reported as alcoholism susceptibility gene.


By comparing 74 genes to the published results of various linkage studies of schizophrenia, we identified 13 alcoholism associated genes that were located in the regions reported to be linked to schizophrenia. These 13 identified genes can be important candidate genes to study the genetic mechanism of co-occurrence of both diseases.