Noah Zaitlen, Bogdan Pasaniuc, Nick Patterson, Samuela Pollack, Benjamin Voight, Leif Groop, David Altshuler, Brian E Henderson, Laurence N Kolonel, Loic Le Marchand, Kevin Waters, Christopher A Haiman, Barbara E Stranger, Emmanouil T Dermitzakis, Peter Kraft, Alkes L Price
MOTIVATION: The question of how to best use information from known associated variants when conducting disease association studies has yet to be answered. Some studies compute a marginal P-value for each Several Nucleotide Polymorphisms independently, ignoring previously discovered variants. Other studies include known variants as covariates in logistic regression, but a weakness of this standard conditioning strategy is that it does not account for disease prevalence and non-random ascertainment, which can induce a correlation structure between candidate variants and known associated variants even if the variants lie on different chromosomes...
July 1, 2012: Bioinformatics