title: Pattern-recognition techniques with haplotype analysis in pharmacogenomics.
abstract: Single nucleotide polymorphisms (SNPs) can be used in clinical association studies to determine the contribution of genes to drug efficacy. However, it would be extremely inefficient to test all the 10 million common SNPs for an association study. Here we review haplotype analysis and pattern-recognition techniques to systematically select candidate SNPs for candidate-gene association studies in pharmacogenomics. First, we survey linkage disequilibrium methods to identify tag SNPs and explore the use of haplotypes as genetic markers that are correlated and associated with drug efficacy. Secondly, we investigate pattern-recognition algorithms and statistical analyses to assess drug efficacy based on SNPs and other factors. Finally, we study pattern-recognition approaches to evaluate the epistasis among genes and SNPs. These techniques may provide tools for clinical association studies and help find genes/SNPs involved in responses to therapeutic drugs or adverse drug reactions.
authors.affiliation: Vita Genomics, Inc., Floor 7, Number 6, Section 1, Jung-Shing Road, Wugu Shiang, Taipei, Taiwan. eugene.lin@vitagenomics.com
authors.forename: Eugene
authors.initials: E
authors.lastname: Lin
authors.forename: Yuchi
authors.initials: Y
authors.lastname: Hwang
authors.forename: Kung-Hao
authors.initials: KH
authors.lastname: Liang
authors.forename: Ellson Y
authors.initials: EY
authors.lastname: Chen
mesh_terms: D000818:Animals; D005819:Genetic Markers / Q000235:genetics; D006239:Haplotypes / Q000235:genetics*; D006801:Humans; D015810:Linkage Disequilibrium / Q000235:genetics; D010363:Pattern Recognition, Automated / Q000379:methods*; D010597:Pharmacogenetics / Q000379:methods*; D020641:Polymorphism, Single Nucleotide / Q000235:genetics
chemical_list: D005819:Genetic Markers