Are a set of microarrays independent of each other?

Details Are a set of microarrays independent of each other? Are a set of microarrays independent of each other?

2009-10-08

arxiv.org/abs/0910.1426v1

Annals of Applied Statistics 2009, Vol. 3, No. 3, 922-942

Statistics

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Published in at http://dx.doi.org/10.1214/09-AOAS236 the Annals of Applied Statistics (http://www.imstat.org/aoas/) by the Ins

Scientific paper

10.1214/09-AOAS236

Having observed an $m\times n$ matrix $X$ whose rows are possibly correlated, we wish to test the hypothesis that the columns are independent of each other. Our motivation comes from microarray studies, where the rows of $X$ record expression levels for $m$ different genes, often highly correlated, while the columns represent $n$ individual microarrays, presumably obtained independently. The presumption of independence underlies all the familiar permutation, cross-validation and bootstrap methods for microarray analysis, so it is important to know when independence fails. We develop nonparametric and normal-theory testing methods. The row and column correlations of $X$ interact with each other in a way that complicates test procedures, essentially by reducing the accuracy of the relevant estimators.

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