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Background  The apolipoprotein E (APOE) and tau proteins play important roles in the pathological development of Alzheimer's disease (AD). Many studies have shown an association between the  APOE  gene and AD. Association between AD and the newly discovered saitohin ( STH ) gene, nested within the intron of the tau gene, has been reported. The present study aimed to elucidate the association between  APOE  and AD, and between  STH  and AD in our sample.    Methods  The functional polymorphisms, rs429358 and rs7412, in the  APOE  gene (which together define the  ε 2,  ε 3, and  ε 4 alleles), and the Q7R SNP in the  STH  gene, were genotyped in 369 patients with AD and 289 healthy European-Americans. The associations between these two genes and AD were analyzed in a case-control design.    Results  Consistent with previously reported results, the frequencies of the  APOE ε 4 allele,  ε 4/ ε 4 genotype and  ε 3/ ε 4 genotype were significantly higher in AD cases than controls; the  ε 4/ ε 4 genotype frequency was significantly higher in early-onset AD (EOAD) than late-onset AD (LOAD); the frequencies of the  ε 2 allele,  ε 3 allele,  ε 3/ ε 3 genotype and  ε 2/ ε 3 genotype were significantly lower in AD cases than controls. Positive likelihood ratios (LRs + ) of  APOE  alleles and genotypes increased in a linear trend with the number of  ε 4 alleles and decreased in a linear trend with the number of  ε 2 or  ε 3 alleles. There was no significant difference in the  STH  allele and genotype frequency distributions between AD cases and controls.    Conclusion  This study confirmed that the  ε 4 allele is a dose-response risk factor for AD and the  ε 4/ ε 4 genotype was associated with a significantly earlier age of onset. Moreover, we found that the  ε 2 allele was a dose-response protective factor for AD and the  ε 3 allele exerted a weaker dose-response protective effect for risk of AD compared with  ε 2. In a clinical setting,  APOE  genotyping could offer additional biological evidence of whether a subject may develop AD, but it is not robust enough to serve as an independent screening or predictive test in the diagnosis of AD.  STH  variation was not significantly associated with AD in our sample.

Variation at APOE and STH loci and Alzheimer's disease