Optimal factorial designs for cDNA microarray experiments

Details Optimal factorial designs for cDNA microarray experiments Optimal factorial designs for cDNA microarray experiments

2008-03-27

arxiv.org/abs/0803.3911v1

Annals of Applied Statistics 2007, Vol. 2, No. 1, 366-385

Statistics

Applications

Published in at http://dx.doi.org/10.1214/07-AOAS144 the Annals of Applied Statistics (http://www.imstat.org/aoas/) by the Ins

Scientific paper

10.1214/07-AOAS144

We consider cDNA microarray experiments when the cell populations have a factorial structure, and investigate the problem of their optimal designing under a baseline parametrization where the objects of interest differ from those under the more common orthogonal parametrization. First, analytical results are given for the $2\times 2$ factorial. Since practical applications often involve a more complex factorial structure, we next explore general factorials and obtain a collection of optimal designs in the saturated, that is, most economic, case. This, in turn, is seen to yield an approach for finding optimal or efficient designs in the practically more important nearly saturated cases. Thereafter, the findings are extended to the more intricate situation where the underlying model incorporates dye-coloring effects, and the role of dye-swapping is critically examined.

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