[BioC] analysis of 70 groups for differential expression

[Naomi Altman]

If I understand you correctly, this is one-way ANOVA with 69 
contrasts, not 69 separate ANOVAs (or t-tests).  I.e. 1 run of limma 
with a huge contrast matrix.

--Naomi

At 12:14 PM 9/11/2007, Lana Schaffer wrote:

>Hi,
>We have a situation were there are 70 groups and
>we want to know if there is differential expression
>in a group.  I think of the problem as contrasting
>the expression of 1 group and the rest of the groups.
>In this case, limma would need to done 70 times for
>each group contrast versis the rest of the groups.
>But this would result in an uneven comparison between
>one group and 70 other groups.  Can someone suggest
>a way to approach this problem?
>
>Lana Schaffer
>Biostatistics/Informatics
>The Scripps Research Institute
>DNA Array Core Facility
>La Jolla, CA 92037
>(858) 784-2263
>(858) 784-2994
>schaffer at scripps.edu
>
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Naomi S. Altman                                814-865-3791 (voice)
Associate Professor
Dept. of Statistics                              814-863-7114 (fax)
Penn State University                         814-865-1348 (Statistics)
University Park, PA 16802-2111