[BioC] Comparing limma results of two different groupings

Daniel Brewer daniel.brewer at icr.ac.uk
Fri Aug 3 17:01:53 CEST 2007

I have been using limma to do differential analysis between two
different groupings, both splitting the samples into two groups.  The
results for one set give approx. 100 significant genes (adj.
p-value<0.05) whereas the other gives approx. 1000 significant genes.
Is this suggestive that the second grouping is more "accurate" than the
other?  What is the best way to test this in a statistical manner.

Many thanks

Daniel Brewer, Ph.D.
Institute of Cancer Research
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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