[BioC] Limma and logistic regression

Daniel Brewer daniel.brewer at icr.ac.uk
Thu Mar 11 12:42:19 CET 2010


I have a situation where I have a microarray set and a binary outcome
that I want to examine.  If I was just looking at one gene I would use
glm with family=bionomial with the expression levels as the explanatory

I would like to look at the whole set of genes and for that I would
normally use limma, but limma has the expression level as the response
variable and so the binary outcome would be an explanatory variable.  Is
this an equivalent approach?  Is it valid and what are the differences,
especially in assumptions?


Daniel Brewer, Ph.D.

Institute of Cancer Research
Molecular Carcinogenesis
Email: daniel.brewer at icr.ac.uk

The Institute of Cancer Research: Royal Cancer Hospital, a charitable Company Limited by Guarantee, Registered in England under Company No. 534147 with its Registered Office at 123 Old Brompton Road, London SW7 3RP.

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