Experimental design for two-color microarrays applied in a pre-existing split-plot experiment.

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dc.contributor.author Milliken, George A.
dc.contributor.author Travers, S.E.
dc.contributor.author Garrett, Karen A.
dc.date.accessioned 2010-01-11T22:33:21Z
dc.date.available 2010-01-11T22:33:21Z
dc.date.issued 2010-01-11T22:33:21Z
dc.identifier.uri http://hdl.handle.net/2097/2377
dc.description.abstract Microarray applications for the study of gene expression are becoming accessible for researchers in more and more systems. Applications from field or laboratory experiments are often complicated by the need to superimpose sample pairing for two-color arrays on experimental designs that may already be complex. For example, split-plot designs are commonly used in biological systems where experiments involve two types of treatments that are not readily applied at the same scale. We demonstrate how effects that are confounded with arrays can still be estimated when there is sufficient replication. To illustrate, we evaluate three methods of sample pairing superimposed on a split-plot design with two treatments, deriving the variance associated with parameter estimates for each. Design A has levels of the whole plot treatment paired on the same microarray within a level of the subplot treatment. Design B has crossed levels paired on the same microarray. Design C has levels of the treatment applied to subplots paired on the same microarray within a whole plot. Designs A and B have lower variance than design C for comparing the levels of the whole plot treatment. Designs B and C have lower variance for comparing the levels of the subplot treatment and design C has lower variance for comparing the levels of the subplot treatment within each level of the whole plot treatment. We provide SAS code for the analyses of variance discussed. en_US
dc.relation.uri http://www.bepress.com/sagmb/vol6/iss1/art20/ en_US
dc.rights The Berkeley Electronic Press © 2007 en_US
dc.subject Ecological genomics en_US
dc.subject Experimental design en_US
dc.subject Gene expression en_US
dc.subject Microarray analysis en_US
dc.subject Split-plot design en_US
dc.title Experimental design for two-color microarrays applied in a pre-existing split-plot experiment. en_US
dc.type Article (publisher version) en_US
dc.date.published 2007 en_US
dc.citation.epage 21 en_US
dc.citation.issue 1, article 20 en_US
dc.citation.jtitle Statistical Applications in Genetics and Molecular Biology en_US
dc.citation.spage 1 en_US
dc.citation.volume 6 en_US
dc.contributor.authoreid kgarrett en_US

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