A forest-based approach to identifying gene and gene gene interactions.

A forest-based approach to identifying gene and gene gene interactions. Research Abstract Details 

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A forest-based approach to identifying gene and gene gene interactions. Abstract Text:

Xiang Chen,Ching-Ti Liu,Meizhuo Zhang,Heping Zhang,Xiang Chen,Ching-Ti Liu,Meizhuo Zhang,Heping Zhang,Xiang Chen,Ching-Ti Liu,Meizhuo Zhang,Heping Zhang,

Multiple genes, gene-by-gene interactions, and gene-by-environment interactions are believed to underlie most complex diseases. However, such interactions are difficult to identify. Although there have been recent successes in identifying genetic variants for complex diseases, it still remains difficult to identify gene-gene and gene-environment interactions. To overcome this difficulty, we propose a forest-based approach and a concept of variable importance. The proposed approach is demonstrated by simulation study for its validity and illustrated by a real data analysis for its use. Analyses of both real data and simulated data based on published genetic models show the effectiveness of our approach. For example, our analysis of a published data set on age-related macular degeneration (AMD) not only confirmed a known genetic variant (P value = 2E-6) for AMD, but also revealed an unreported haplotype surrounding single-nucleotide polymorphism (SNP) rs10272438 on chromosome 7 that was significantly associated with AMD (P value = 0.0024). These significance levels are obtained after the consideration for a large number of SNPs. Thus, the importance of this work is twofold: it proposes a powerful and flexible method to identify high-risk haplotypes and their interactions and reveals a potentially protective variant for AMD.

A forest-based approach to identifying gene and gene gene interactions. Publishing Authors By Initials

X Chen,CT Liu,M Zhang,H Zhang,X Chen,CT Liu,M Zhang,H Zhang,X Chen,CT Liu,M Zhang,H Zhang,

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A forest-based approach to identifying gene and gene gene interactions. Journal Published:

PUBLICATION TYPE: Research Support, N.I.H., Extr

Journal: Proceedings of the National Academy of Sciences of

VOLUME: 104

Page Numbers: 19199-203

Journal Abbreviation: Proc. Natl. Acad. Sci. U.S.A.

ISSN: 1091-6490

DAY: 28

MONTH: 11

YEAR: 2007

A forest-based approach to identifying gene and gene gene interactions. Information

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LANGUAGE: eng

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Grant and Affiliation Information for A forest-based approach to identifying gene and gene gene interactions.

AFFILIATION: Department of Epidemiology and Public Health, Yale University School of Medicine, New Haven, CT 06520-8034, USA.

Country: United States

AGENCY: United States NICHD

GRANT: U01HD050062

ACRONYM: HD

MEDLINETA: Proc Natl Acad Sci U S A

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