Modeling sequence–sequence interactions for drug response

• DOI: 10.1093/bioinformatics/btm110
• Publication Date: 2007-03-29T00:32:41Z
• Authors: Min Lin; Hongying Li; Wei Hou; Julie A. Johnson; Rongling Wu
• Keywords: Adult; Aged, 80 and over; Male; Likelihood Functions; 0303 health sciences; Models, Statistical; Dose-Response Relationship, Drug; Quantitative Trait Loci; Epistasis, Genetic; Middle Aged; Polymorphism, Single Nucleotide; 3. Good health; 03 medical and health sciences; Haplotypes; Heart Rate; Pharmacogenetics; Dobutamine; Humans; Female; Receptors, Adrenergic, beta-2; Receptors, Adrenergic, beta-1; Aged

AbstractMotivation: Genetic interactions or epistasis may play an important role in the genetic etiology of drug response. With the availability of large-scale, high-density single nucleotide polymorphism markers, a great challenge is how to associate haplotype structures and complex drug response through its underlying pharmacodynamic mechanisms.Results: We have derived a general statistical model for detecting an interactive network of DNA sequence variants that encode pharmacodynamic processes based on the haplotype map constructed by single nucleotide polymorphisms. The model was validated by a pharmacogenetic study for two predominant beta-adrenergic receptor (βAR) subtypes expressed in the heart, β1AR and β2AR. Haplotypes from these two receptors trigger significant interaction effects on the response of heart rate to different dose levels of dobutamine. This model will have implications for pharmacogenetic and pharmacogenomic research and drug discovery.Availability: A computer program written in Matlab can be downloaded from the webpage of statistical genetics group at the University of Florida.Contact: [e-mail] information: Supplementary data are available at Bioinformatics online.