title: A MINE alternative to D-optimal designs for the linear model.
abstract: Doing large-scale genomics experiments can be expensive, and so experimenters want to get the most information out of each experiment. To this end the Maximally Informative Next Experiment (MINE) criterion for experimental design was developed. Here we explore this idea in a simplified context, the linear model. Four variations of the MINE method for the linear model were created: MINE-like, MINE, MINE with random orthonormal basis, and MINE with random rotation. Each method varies in how it maximizes the MINE criterion. Theorem 1 establishes sufficient conditions for the maximization of the MINE criterion under the linear model. Theorem 2 establishes when the MINE criterion is equivalent to the classic design criterion of D-optimality. By simulation under the linear model, we establish that the MINE with random orthonormal basis and MINE with random rotation are faster to discover the true linear relation with p regression coefficients and n observations when p>>n. We also establish in simulations with n<100, p=1000, σ=0.01 and 1000 replicates that these two variations of MINE also display a lower false positive rate than the MINE-like method and additionally, for a majority of the experiments, for the MINE method.
authors.affiliation: Institute of Bioinformatics, University of Georgia, Athens, Georgia, United States of America.
authors.forename: Amanda M
authors.initials: AM
authors.lastname: Bouffier
authors.affiliation: Genetics Department, University of Georgia, Athens, Georgia, United States of America.
authors.forename: Jonathan
authors.initials: J
authors.lastname: Arnold
authors.affiliation: Physics and Astronomy Department, University of Georgia, Athens, Georgia, United States of America.
authors.forename: H Bernd
authors.initials: HB
authors.lastname: Schüttler
mesh_terms: D023281:Genomics / Q000379:methods*; D008957:Models, Genetic