Understanding genetic dissection of vascular dementia (VD) has been quite limited by single gene analyses. We simultaneously analyzed multiple genes in their association with the susceptibility to VD to examine the genetic susceptibility controlled by their additive and epistatic effects.
Two hundred and seven VD patients and age/sex matched 207 controls were genotyped for 71 candidate genes that were expressed in the human brain. Multifactor dimensionality reduction was used to select the best genetic variants. Then, entropy decomposition was applied to assess the selected variants' individual and interactive genetic contributions to the susceptibility to VD.
The best two-locus, three-locus, four-locus candidate models resulted by the multifactor dimensionality reduction analysis showed the significance in both training and testing accuracy estimates. The largest estimate (10 out of 10) of cross-validation consistency was obtained for the two-locus model that included family with sequence similarity 134 member B (FAM134B, rs10041159) and tumor necrosis factor receptor superfamily, member 19 (TNFRSF19, rs9317882). The subsequent entropy decomposition analysis showed that individual genetic variants eliminated the uncertainty of 3.02 and 6.25% in case–control status, and the entropy largely decreased with the presence of their interaction. Especially, the interaction among genetic variants included in the final model rendered the additional decrease (32.95%) of entropy.
The FAM134B and TNFRSF19 showed a dramatically strong synergistic epistasis in explaining the genetic dissection of the susceptibility to complex VD.
Supplemental digital content is available in the text.
aDepartment of Bioinformatics and Life Science, Soongsil University, Seoul
bInterdepartmental Program in Biomedical Gerontology, Graduate School, Hallym University, Chuncheon, Kangwon-do, South Korea
Correspondence to Professor Chaeyoung Lee, PhD, Department of Bioinformatics and Life Science, Soongsil University, 511 Sangdo-dong, Dongjak-gu, Seoul 156-743, South Korea Tel: +82 2 820 0455; fax: +82 2 824 4383; e-mail: email@example.com
Supplemental digital content is available for this article. Direct URL citations appear in the printed text and are provided in the HTML and PDF versions of this article on the journal's Website (www.psychgenetics.com).
Received September 10, 2009
Accepted May 8, 2010